ABCA1
Coloration (feathers)
Cholesterol metabolism
Coding,
SNP
N
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Attie AD; Hamon Y; Brooks-Wilson AR ; et al. (2002)
Identification and functional analysis of a naturally occurring E89K mutation in the ABCA1 gene of t[...]
GP00001682
Abca1
P41233
Morphology; Physiology
Morphology; Physiology
amino acid substitution at a residue that is conserved in the ABCA1 gene between human; mouse; chicken; and Takifugu rubripes. Generation of a mouse ABCA1 protein with the mutation disrupts protein function. N
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
ABCA1
Gallus gallus
chicken - (species)
Published - Accepted by Curator
ABCA2
Xenobiotic resistance (insecticide; Bt Cry2Ab toxin)
Coding,
Indel
N
Helicoverpa armigera
cotton bollworm - (species) D
Intraspecific
Linkage Mapping
Tay WT; Mahon RJ; Heckel DG ; et al. (2015)
Insect Resistance to Bacillus thuringiensis Toxin Cry2Ab Is Conferred by Mutations in an ABC Transpo[...]
GP00000002
ABCA2
A0A0S0G7V0
Physiology
65bp indel in exon16 inducing a frameshift N
Helicoverpa armigera
cotton bollworm - (species)
Helicoverpa armigera
cotton bollworm - (species) D
ABCA2
Helicoverpa armigera
cotton bollworm - (species)
Published - Accepted by Curator
ABCA2
Xenobiotic resistance (insecticide; Bt Cry2Ab toxin)
Coding,
Insertion
N
Trichoplusia ni
cabbage looper - (species) D
Intraspecific
Linkage Mapping
Yang X; Chen W; Song X ; et al. (2019)
Mutation of ABC transporter ABCA2 confers resistance to Bt toxin Cry2Ab in Trichoplusia ni.
GP00002054
ABCA2
A0A0S0G7V0
Physiology
insertion of a transposon Tntransib (2581 bp) in ABCA2 which changes splicing sites in the transcript and lead to an indel in the coding region: change of 1551VETLAHALGFLRHLDKR1567 into 1551AHWGK- LYGSNTQN1563 N
Trichoplusia ni
cabbage looper - (species)
Trichoplusia ni
cabbage looper - (species) D
ABCA2
Trichoplusia ni
cabbage looper - (species)
Published - Accepted by Curator
ABCA2
Xenobiotic resistance (insecticide; Bt Cry2Ab)
Coding,
Insertion
N
Trichoplusia ni
cabbage looper - (species) D
Intraspecific
Linkage Mapping
Yang X; Chen W; Song X ; et al. (2019)
Mutation of ABC transporter ABCA2 confers resistance to Bt toxin Cry2Ab in Trichoplusia ni.
GP00002467
ABCA2
Q9BZC7
Physiology
insertion of a 2581-bp transposon Tntransib in ABCA2. This insertion disrupts splicing sites and leads to indels in the protein sequence. CRISPR ABCA2 mutants are highly resistant to Cry2Ab. N
Trichoplusia ni
cabbage looper - (species)
Trichoplusia ni
cabbage looper - (species) D
ABCA2
Trichoplusia ni
cabbage looper - (species)
Published - Accepted by Curator
ABCB1
Plant size (dwarfism)
Unknown,
Unknown
Cenchrus americanus
(species)
Domesticated
Linkage Mapping
Parvathaneni RK; Jakkula V; Padi FK ; et al. (2013)
Fine-mapping and identification of a candidate gene underlying the d2 dwarfing phenotype in pearl mi[...]
GP00000006
ABCB1
Q9ZR72
Morphology
unknown
Cenchrus americanus
(species)
Cenchrus americanus
(species)
ABCB1
Cenchrus americanus
(species)
Published - Accepted by Curator
ABCC2
Xenobiotic resistance (insecticide)
Coding,
Insertion
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Atsumi S; Miyamoto K; Yamamoto K ; et al. (2012)
Single amino acid mutation in an ATP-binding cassette transporter gene causes resistance to Bt toxin[...]
GP00000011
ABCC2
A0A0E3ZDK3
Physiology
1a.a. insertion at codon 234 (Tyr)
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
ABCC2
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
ABCC2
Xenobiotic resistance (insecticide)
Coding,
Deletion
N
Heliothis virescens
tobacco budworm - (species) D
Intraspecific
Linkage Mapping
Gahan LJ; Pauchet Y; Vogel H ; et al. (2010)
An ABC transporter mutation is correlated with insect resistance to Bacillus thuringiensis Cry1Ac to[...]
GP00000012
ABCC2
A0A0E3ZDK3
Physiology
22bp deletion N
Heliothis virescens
tobacco budworm - (species)
Heliothis virescens
tobacco budworm - (species) D
ABCC2
Heliothis virescens
tobacco budworm - (species)
Published - Accepted by Curator
ABCC2
Xenobiotic resistance (insecticide)
Coding,
Deletion
N
Plutella xylostella
diamondback moth - (species) D
Intraspecific
Linkage Mapping
Baxter SW; Badenes-Pérez FR; Morrison A ; et al. (2011)
Parallel evolution of Bacillus thuringiensis toxin resistance in lepidoptera.
GP00000013
ABCC2
A0A0E3ZDK3
Physiology
30bp deletion N
Plutella xylostella
diamondback moth - (species)
Plutella xylostella
diamondback moth - (species) D
ABCC2
Plutella xylostella
diamondback moth - (species)
Published - Accepted by Curator
ABCC2
Xenobiotic resistance (insecticide; Bt Cry1Ac)
Unknown,
Unknown
Trichoplusia ni
cabbage looper - (species) D
Intraspecific
Linkage Mapping
Baxter SW; Badenes-Pérez FR; Morrison A ; et al. (2011)
Parallel evolution of Bacillus thuringiensis toxin resistance in lepidoptera.
GP00000014
ABCC2
A0A0E3ZDK3
Physiology
Not identified
Trichoplusia ni
cabbage looper - (species)
Trichoplusia ni
cabbage looper - (species) D
ABCC2
Trichoplusia ni
cabbage looper - (species)
Published - Accepted by Curator
ABCC2
Xenobiotic resistance (insecticide; Bt toxins)
Coding,
Deletion
N
Spodoptera exigua
beet armyworm - (species) D
Intraspecific
Linkage Mapping
Park Y; González-Martínez RM; Navarro-Cerrillo G ; et al. (2014)
ABCC transporters mediate insect resistance to multiple Bt toxins revealed by bulk segregant analysi[...]
GP00001439
Physiology
About 500 nt genomic deletion over 2 exons involving 246 nt coding 82aa N
Spodoptera exigua
beet armyworm - (species)
Spodoptera exigua
beet armyworm - (species) D
ABCC2
Spodoptera exigua
beet armyworm - (species)
Published - Accepted by Curator
ABCG2
Milk yield
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Cohen-Zinder M; Seroussi E; Larkin DM ; et al. (2005)
Identification of a missense mutation in the bovine ABCG2 gene with a major effect on the QTL on chr[...]
1 Additional References
GP00000015
Abcg2
Q7TMS5
Physiology
Tyr581Ser
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
ABCG2
Bos taurus
cattle - (species)
Published - Accepted by Curator
Abdominal-B
Coloration (male-specific)
Unknown,
Unknown
Drosophila malerkotliana
(species)
Intraspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001548
Abd-B
P09087
Morphology
unknown
Drosophila malerkotliana
(species)
Drosophila malerkotliana
(species)
Abdominal-B
Drosophila malerkotliana
(species)
Published - Accepted by Curator
Abdominal-B
Coloration (male-specific)
Unknown,
Unknown
Drosophila merina
(species)
Interspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001549
Abd-B
P09087
Morphology
unknown
Drosophila ercepeae
(species)
Drosophila merina
(species)
Abdominal-B
Drosophila merina
(species)
Published - Accepted by Curator
Abdominal-B
Coloration (abdomen; male)
Cis-regulatory,
Unknown
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Liu Y; Ramos-Womack M; Han C ; et al. (2019)
Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution.
GP00002021
Abd-B
P09087
Morphology
change in the iab5 cis-regulatory element (15kb long)- exact causing mutation(s) unknown - decreased AbdB abdominal expression
Drosophila yakuba
(species)
Drosophila santomea
(species) D
Abdominal-B
Drosophila santomea
(species)
Published - Accepted by Curator
ACD6 = ACCELERATED CELL DEATH 6
Plant size
Pathogen resistance (plant microbes)
Herbivore resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Todesco M; Balasubramanian S; Hu TT ; et al. (2010)
Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana.
1 Additional References
GP00000025
ACD6
Q8LPS2
Physiology
Physiology
Physiology
Various
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
ACD6 = ACCELERATED CELL DEATH 6
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
acetyl-CoA carboxylase (ACC)
Xenobiotic resistance (insecticide; spirotetramat)
Coding,
SNP
Caenorhabditis elegans
(species) D
Experimental Evolution
Linkage Mapping
Guest M; Kriek N; Flemming AJ (2020)
Studies of an insecticidal inhibitor of acetyl-CoA carboxylase in the nematode C. elegans.
GP00002617
ACC
Q7JV23
Physiology
A1559V
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
acetyl-CoA carboxylase (ACC)
Caenorhabditis elegans
(species)
Published - Accepted by Curator
acetyl-CoA carboxylase (ACC)
Xenobiotic resistance (insecticide; spirotetramat)
Coding,
SNP
Caenorhabditis elegans
(species) D
Experimental Evolution
Linkage Mapping
Guest M; Kriek N; Flemming AJ (2020)
Studies of an insecticidal inhibitor of acetyl-CoA carboxylase in the nematode C. elegans.
GP00002618
ACC
Q7JV23
Physiology
A1847V
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
acetyl-CoA carboxylase (ACC)
Caenorhabditis elegans
(species)
Published - Accepted by Curator
achaete-scute complex
Bristle number (abdomen; female-limited)
Cis-regulatory,
Insertion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Long AD; Lyman RF; Morgan AH ; et al. (2000)
Both naturally occurring insertions of transposable elements and intermediate frequency polymorphism[...]
GP00000046
sc
P10084
Morphology
transposon insertion in non-coding region
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
achaete-scute complex
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
achaete-scute complex
Bristle number (abdomen)
Cis-regulatory,
Indel
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Long AD; Lyman RF; Morgan AH ; et al. (2000)
Both naturally occurring insertions of transposable elements and intermediate frequency polymorphism[...]
GP00000047
sc
P10084
Morphology
indel MC21 in promoter region of scute
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
achaete-scute complex
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
achaete-scute complex
Bristle number (thorax)
Cis-regulatory,
Indel
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Gruber JD; Genissel A; Macdonald SJ ; et al. (2007)
How repeatable are associations between polymorphisms in achaete-scute and bristle number variation [...]
GP00000048
sc
P10084
Morphology
indel MC22 in promoter region of scute
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
achaete-scute complex
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
achaete-scute complex
Bristle number (genitalia; leg sex comb)
3 Mutations:
Cis-regulatory
SNP
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Nagy O; Nuez I; Savisaar R ; et al. (2018)
Correlated Evolution of Two Copulatory Organs via a Single cis-Regulatory Nucleotide Change.
GP00001680
sc
P10084
Morphology
3 mutations
Drosophila yakuba
(species)
Drosophila santomea
(species) D
achaete-scute complex
Drosophila santomea
(species)
Published - Accepted by Curator
AEP2
Hybrid Incompatibility (F2 sterility)
Coding,
SNP
Saccharomyces bayanus
(species)
Domesticated
Linkage Mapping
Lee HY; Chou JY; Cheong L ; et al. (2008)
Incompatibility of nuclear and mitochondrial genomes causes hybrid sterility between two yeast speci[...]
GP00000051
AEP2
P22136
Physiology
The region between aa 348 and aa 496 plays a critical role. When this region was further dissected in the constructs H-AEP2-bcb and H-AEP2-m3; both failed to restore respiration in the Chromosome 13 line. This result suggests that multiple critical mutations have occurred during the functional diversification of Sc-AEP2 and Sb-AEP2.
Exact causing mutation(s) not determined
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces bayanus
(species)
AEP2
Saccharomyces bayanus
(species)
Published - Accepted by Curator
AGAMOUS-Like6
Plant architecture
Inflorescence architecture
Coding,
SNP
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Huang X; Effgen S; Meyer RC ; et al. (2012)
Epistatic natural allelic variation reveals a function of AGAMOUS-LIKE6 in axillary bud formation in[...]
GP00000053
AGL6
P29386
Morphology
Morphology
Pro201Leu
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AGAMOUS-Like6
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
aggrecan
Body size (dwarfism)
Coding,
Insertion
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Cavanagh JA; Tammen I; Windsor PA ; et al. (2007)
Bulldog dwarfism in Dexter cattle is caused by mutations in ACAN.
GP00002140
ACAN
P16112
Morphology
2266_2267insGGCA mutation introduces a frameshift and a premature termination codon into exon 11; the frameshift occurs at amino acid position 756 ; the termination codon occurs at position 914 compared to the normal aggrecan product of 2327 amino acids N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
aggrecan
Bos taurus
cattle - (species)
Published - Accepted by Curator
aggrecan
Body size (dwarfism)
Cis-regulatory,
SNP
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Cavanagh JA; Tammen I; Windsor PA ; et al. (2007)
Bulldog dwarfism in Dexter cattle is caused by mutations in ACAN.
GP00002141
ACAN
P16112
Morphology
−198C>T transition predicted to introduce a new ATG start codon 199 bp upstream of the normal start codon N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
aggrecan
Bos taurus
cattle - (species)
Published - Accepted by Curator
Agouti
Coloration (coat; dorso-ventral)
Cis-regulatory,
Unknown
Peromyscus polionotus leucocephalus
(subspecies) D
Peromyscus polionotus niveiventris
(subspecies) D
Peromyscus polionotus peninsularis
(subspecies) D
Peromyscus polionotus allophrys
(subspecies) D
Peromyscus polionotus trissyllepsis
(subspecies) D
Peromyscus polionotus ammobates
(subspecies) D
Peromyscus polionotus albifrons
(subspecies) D
Peromyscus polionotus subgriseus
(subspecies) D
Intraspecific
Linkage Mapping
Manceau M; Domingues VS; Mallarino R ; et al. (2011)
The developmental role of Agouti in color pattern evolution.
1 Additional References
GP00000057
Asip
Q03288
Morphology
"A closer investigation of this region revealed three SNPs significantly associated with pigment variation, spanning 1,756 bp, in strong linkage disequilibrium (mean r2 = 0.85). A single SNP on chromosome 4 (chr4) at position chr4: 9,845,301 showed a markedly stronger association with pPC1 than the other two (Fig. 3B). This SNP is located between two untranslated exons (exons 1D and 1E), is 120 bp upstream of a cluster of Short Interspersed Nuclear Elements (SINE) in reverse orientation relative to the transcription of Agouti, and is 5,641 bp upstream of the first coding exon (exon 2). "
"Next, we employ an association-mapping approach to identify an ∼2-kb previously uncharacterized noncoding region of Agouti associated with color variation. We then show that this 2-kb region can drive dermal expression in Mus embryos, demonstrating its regulatory activity in the skin during the establishment of pigmentation."
Peromyscus polionotus subgriseus
(subspecies)
Peromyscus polionotus polionotus
(subspecies)
Peromyscus polionotus albifrons
(subspecies)
Peromyscus polionotus leucocephalus
(subspecies) D
Peromyscus polionotus niveiventris
(subspecies) D
Peromyscus polionotus peninsularis
(subspecies) D
Peromyscus polionotus allophrys
(subspecies) D
Peromyscus polionotus trissyllepsis
(subspecies) D
Peromyscus polionotus ammobates
(subspecies) D
Peromyscus polionotus albifrons
(subspecies) D
Peromyscus polionotus subgriseus
(subspecies) D
Agouti
Peromyscus polionotus leucocephalus
(subspecies)
Peromyscus polionotus niveiventris
(subspecies)
Peromyscus polionotus peninsularis
(subspecies)
Peromyscus polionotus allophrys
(subspecies)
Peromyscus polionotus trissyllepsis
(subspecies)
Peromyscus polionotus ammobates
(subspecies)
Peromyscus polionotus albifrons
(subspecies)
Peromyscus polionotus subgriseus
(subspecies)
Published - Accepted by Curator
Agouti
Coloration (coat; dorso-ventral)
Cis-regulatory,
Unknown
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Drögemüller C; Giese A; Martins-Wess F ; et al. (2006)
The mutation causing the black-and-tan pigmentation phenotype of Mangalitza pigs maps to the porcine[...]
GP00000058
Asip
Q03288
Morphology
unknown
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
Agouti
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Agouti
Coloration (coat)
Coding,
Deletion
N
Equus caballus
horse - (species) D
Intraspecific
Linkage Mapping
Rieder S; Taourit S; Mariat D ; et al. (2001)
Mutations in the agouti (ASIP), the extension (MC1R), and the brown (TYRP1) loci and their associati[...]
1 Additional References
GP00000062
Asip
Q03288
Morphology
11bp deletion in exon 2: g.2174_2184del11 c.191_201del N
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
Agouti
Equus caballus
horse - (species)
Published - Accepted by Curator
Agouti
Coloration (coat)
Coding,
Deletion
N
Felis catus
domestic cat - (species) D
Domesticated
Linkage Mapping
Eizirik E; Yuhki N; Johnson WE ; et al. (2003)
Molecular genetics and evolution of melanism in the cat family.
GP00000063
Asip
Q03288
Morphology
Deletion of nt 123-124 N
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species) D
Agouti
Felis catus
domestic cat - (species)
Published - Accepted by Curator
Agouti
Coloration (feathers)
Coding,
Deletion
N
Coturnix japonica
Japanese quail - (species) D
Domesticated
Linkage Mapping
Hiragaki T; Inoue-Murayama M; Miwa M ; et al. (2008)
Recessive black is allelic to the yellow plumage locus in Japanese quail and associated with a frame[...]
GP00000068
Asip
Q03288
Morphology
8bp frameshift deletion N
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species) D
Agouti
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
Agouti
Coloration (feathers)
Cis-regulatory,
Deletion
Coturnix japonica
Japanese quail - (species) D
Domesticated
Linkage Mapping
Nadeau NJ; Minvielle F; Ito S ; et al. (2008)
Characterization of Japanese quail yellow as a genomic deletion upstream of the avian homolog of the[...]
1 Additional References
GP00000069
Asip
Q03288
Morphology
141162-bp deletion resulting in novel promoter sharing and expression of a RALY-ASIP fusion transcript
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species) D
Agouti
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
Agouti
Coloration (feathers)
Gene Amplification,
Insertion
Coturnix japonica
Japanese quail - (species) D
Domesticated
Linkage Mapping
Robic A; Morisson M; Leroux S ; et al. (2019)
Two new structural mutations in the 5' region of the ASIP gene cause diluted feather color phenotype[...]
GP00001973
Asip
Q03288
Morphology
71-kb tandem duplication that comprises one unchanged copy of ASIP and one copy present in the ITCH-ASIP fusion gene which leads to a transcript coding for a normal ASIP protein
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species) D
Agouti
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
Agouti (ASIP)
Coloration (coat)
Lifespan
2 Mutations:
Coding
N
Ovis aries
sheep - (species) D
Intraspecific
Linkage Mapping
Gratten J; Pilkington JG; Brown EA ; et al. (2010)
The genetic basis of recessive self-colour pattern in a wild sheep population.
1 Additional References
GP00001356
Asip
Q03288
Morphology
Physiology
2 mutations
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
Agouti (ASIP)
Ovis aries
sheep - (species)
Published - Accepted by Curator
Agouti-related peptide 2 (agrp2)
Coloration (stripes)
Cis-regulatory,
Unknown
Haplochromis sauvagei
(species)
Haplochromis chilotes
(species)
Interspecific
Linkage Mapping
Kratochwil CF; Liang Y; Gerwin J ; et al. (2018)
Agouti-related peptide 2 facilitates convergent evolution of stripe patterns across cichlid fish rad[...]
1 Additional References
GP00001764
asip2b
J3JQX9
Morphology
Causal mutation(s) are in a 1.1-kb interval within the first agrp2 intron
Pundamilia nyererei
(species)
Haplochromis sauvagei
(species)
Haplochromis chilotes
(species)
Agouti-related peptide 2 (agrp2)
Haplochromis sauvagei
(species)
Haplochromis chilotes
(species)
Published - Accepted by Curator
Agouti-related peptide 2 (agrp2)
Coloration (stripes)
Cis-regulatory,
Unknown
Haplochromis sauvagei
(species)
Haplochromis chilotes
(species)
Interspecific
Linkage Mapping
Kratochwil CF; Liang Y; Gerwin J ; et al. (2018)
Agouti-related peptide 2 facilitates convergent evolution of stripe patterns across cichlid fish rad[...]
1 Additional References
GP00001960
asip2b
J3JQX9
Morphology
Causal mutation(s) are in a 1.1-kb interval within the first agrp2 intron
Pundamilia nyererei
(species)
Haplochromis sauvagei
(species)
Haplochromis chilotes
(species)
Agouti-related peptide 2 (agrp2)
Haplochromis sauvagei
(species)
Haplochromis chilotes
(species)
Published - Accepted by Curator
AHR
Xenobiotic resistance (polycyclic aromatic hydrocarbons; TCDD)
Coding,
SNP
Mus musculus
house mouse - (species)
Domesticated
Linkage Mapping
Poland A; Palen D; Glover E (1994)
Analysis of the four alleles of the murine aryl hydrocarbon receptor.
GP00001810
Ahr
P30561
Physiology
alanine at position 375 mutated into valine; decreases the affinity 4-fold
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
AHR
Mus musculus
house mouse - (species)
Published - Accepted by Curator
AHR
Xenobiotic resistance (TCDD)
Coding,
SNP
N
Rattus norvegicus
Norway rat - (species) D
Intraspecific
Linkage Mapping
Tuomisto JT; Viluksela M; Pohjanvirta R ; et al. (1999)
The AH receptor and a novel gene determine acute toxic responses to TCDD: segregation of the resista[...]
2 Additional References
GP00001813
Ahr
P30561
Physiology
point mutation in the exon/intron 10 boundary in AHR genomic structure that leads to use of 3 alternative cryptic splice sites; potentially creating 3 alternative transcripts and 2 protein products. At the protein level the mutation leads to a total loss of either 43 or 38 amino acids (with altered sequence for the last seven amino acids in the latter case) toward the carboxyl-terminal end in the trans-activation domain of the AhR. H/W rats also harbor a point mutation in exon 10 that will cause a Val-to-Ala substitution in codon 497, but this occurs in a variable region of the AhR N
Rattus norvegicus
Norway rat - (species)
Rattus norvegicus
Norway rat - (species) D
AHR
Rattus norvegicus
Norway rat - (species)
Published - Accepted by Curator
AIM22
F2 lethality
Coding,
SNP
Saccharomyces bayanus
(species)
Interspecific
Linkage Mapping
Chou JY; Hung YS; Lin KH ; et al. (2010)
Multiple molecular mechanisms cause reproductive isolation between three yeast species.
GP00000073
AIM22
P47051
Physiology
Several candidate non-synonymous changes - exact causing mutation(s) unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces bayanus
(species)
AIM22
Saccharomyces bayanus
(species)
Published - Accepted by Curator
alcohol dehydrogenase (Adh)
Xenobiotic resistance (alcohol)
6 Mutations:
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Choudhary M; Laurie CC (1991)
Use of in vitro mutagenesis to analyze the molecular basis of the difference in Adh expression assoc[...]
4 Additional References
GP00001962
Adh
P00334
Physiology
6 mutations
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
alcohol dehydrogenase (Adh)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
alcohol dehydrogenase (Adh)
Xenobiotic resistance (alcohol)
Coding,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Vigue C; Sofer W (1974)
Adh-n5: a temperature-sensitive mutant at the Adh locus in Drosophila.
GP00001988
Adh
P00334
Physiology
Activity of the purified enzyme is temperature-sensitive; as opposed to the other allele which is not. Exact coding mutation(s) unknown.
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
alcohol dehydrogenase (Adh)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Aldehyde dehydrogenase (Aldh)
Xenobiotic resistance (alcohol)
Coding,
SNP
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Fry JD; Donlon K; Saweikis M (2008)
A worldwide polymorphism in aldehyde dehydrogenase in Drosophila melanogaster: evidence for selectio[...]
GP00002007
Aldh
Q9VLC5
Physiology
L479F C9391311T
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Aldehyde dehydrogenase (Aldh)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Alk / Starch Synthase II
Grain cooking texture
4 Mutations:
Coding
SNP
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Umemoto T; Yano M; Satoh H ; et al. (2002)
Mapping of a gene responsible for the difference in amylopectin structure between japonica-type and [...]
2 Additional References
GP00000078
SSII-3
Q0DDE3
Physiology
4 mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
Alk / Starch Synthase II
Oryza sativa
rice - (species)
Published - Accepted by Curator
Allantoin permease DAL4
Nitrogen use (growth rate on allantoin)
Coding,
Indel
N
Saccharomyces cerevisiae
baker's yeast - (species) D
Intraspecific
Linkage Mapping
Ibstedt S; Stenberg S; Bagés S ; et al. (2015)
Concerted evolution of life stage performances signals recent selection on yeast nitrogen use.
GP00001503
DAL4
Q04895
Physiology
c.1201delA a single nucleotide frameshifting insertion (deletion?) N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Allantoin permease DAL4
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Allantoinase DAL1
Nitrogen use (growth rate on allantoin)
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species) D
Intraspecific
Linkage Mapping
Ibstedt S; Stenberg S; Bagés S ; et al. (2015)
Concerted evolution of life stage performances signals recent selection on yeast nitrogen use.
GP00001502
DAL1
P32375
Physiology
c.415C>T p.P139S predicted to be strongly detrimental
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Allantoinase DAL1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
ALMT gene cluster
Metal tolerance
Gene Amplification,
Indel
Secale cereale
rye - (species)
Domesticated
Linkage Mapping
Collins NC; Shirley NJ; Saeed M ; et al. (2008)
An ALMT1 gene cluster controlling aluminum tolerance at the Alt4 locus of rye (Secale cereale L).
GP00000079
ALMT1
Q76LB1
Physiology
Copy number Variant
Secale cereale
rye - (species)
Secale cereale
rye - (species)
ALMT gene cluster
Secale cereale
rye - (species)
Published - Accepted by Curator
ALMT1
Metal tolerance
Cis-regulatory,
Unknown
Triticum aestivum
bread wheat - (species)
Domesticated
Linkage Mapping
Raman H; Zhang K; Cakir M ; et al. (2005)
Molecular characterization and mapping of ALMT1, the aluminium-tolerance gene of bread wheat (Tritic[...]
2 Additional References
GP00000080
ALMT1
Q76LB1
Physiology
multiple regulatory changes
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
ALMT1
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
ALS
Xenobiotic resistance (herbicides; ALS inhibitor)
Coding,
SNP
Amaranthus tuberculatus
(species) D
Intraspecific
Linkage Mapping
Patzoldt William L; Tranel Patrick J (2007
)
Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus)
GP00001893
ALS
P17597
Physiology
W574L
Amaranthus tuberculatus
(species)
Amaranthus tuberculatus
(species) D
ALS
Amaranthus tuberculatus
(species)
Published - Accepted by Curator
ALS
Xenobiotic resistance (herbicides; ALS inhibitor)
Coding,
SNP
Amaranthus tuberculatus
(species) D
Intraspecific
Linkage Mapping
Patzoldt William L; Tranel Patrick J (2007
)
Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus)
GP00001894
ALS
P17597
Physiology
S653N
Amaranthus tuberculatus
(species)
Amaranthus tuberculatus
(species) D
ALS
Amaranthus tuberculatus
(species)
Published - Accepted by Curator
ALS
Xenobiotic resistance (herbicides; ALS inhibitor)
Coding,
SNP
Amaranthus tuberculatus
(species) D
Intraspecific
Linkage Mapping
Patzoldt William L; Tranel Patrick J (2007
)
Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus)
GP00001895
ALS
P17597
Physiology
S653T
Amaranthus tuberculatus
(species)
Amaranthus tuberculatus
(species) D
ALS
Amaranthus tuberculatus
(species)
Published - Accepted by Curator
Amhr2
Sex determination (female vs male)
Coding,
SNP
Takifugu rubripes
torafugu - (species)
Takifugu poecilonotus
finepatterned puffer - (species)
Takifugu pardalis
panther puffer - (species)
Intraspecific
Linkage Mapping
Kamiya T; Kai W; Tasumi S ; et al. (2012)
A trans-species missense SNP in Amhr2 is associated with sex determination in the tiger pufferfish, [...]
GP00002147
AMHR2
Q16671
Physiology
His/Asp384 heterozygous males have reduced Amrh2 activity due to decreased activity of the kinase signaling domain
Takifugu rubripes
torafugu - (species)
Takifugu poecilonotus
finepatterned puffer - (species)
Takifugu pardalis
panther puffer - (species)
Takifugu rubripes
torafugu - (species)
Takifugu poecilonotus
finepatterned puffer - (species)
Takifugu pardalis
panther puffer - (species)
Amhr2
Takifugu rubripes
torafugu - (species)
Takifugu poecilonotus
finepatterned puffer - (species)
Takifugu pardalis
panther puffer - (species)
Published - Accepted by Curator
AMN1
Cell separation
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Yvert G; Brem RB; Whittle J ; et al. (2003)
Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors.
GP00000082
AMN1
P38285
Physiology
D368V
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
AMN1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
AMPD1 (=CG32626)
Drug resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Kislukhin G; King EG; Walters KN ; et al. (2013)
The genetic architecture of methotrexate toxicity is similar in Drosophila melanogaster and humans.
GP00000083
AMPD1
P23109
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
AMPD1 (=CG32626)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
an2-like (Stan2)
Coloration (tuber skin)
Cis-regulatory,
Unknown
Solanum tuberosum
potato - (species)
Domesticated
Linkage Mapping
Jung CS; Griffiths HM; De Jong DM ; et al. (2009)
The potato developer (D) locus encodes an R2R3 MYB transcription factor that regulates expression of[...]
GP00000088
AN2
A4GRU8
Morphology
unknown
Solanum tuberosum
potato - (species)
Solanum tuberosum
potato - (species)
an2-like (Stan2)
Solanum tuberosum
potato - (species)
Published - Accepted by Curator
anthocyanin2 (an2)
Coloration (fruit)
Cis-regulatory,
Unknown
Capsicum chinense
(species)
Domesticated
Linkage Mapping
Borovsky Y; Oren-Shamir M; Ovadia R ; et al. (2004)
The A locus that controls anthocyanin accumulation in pepper encodes a MYB transcription factor homo[...]
GP00000087
AN2
A4GRU8
Morphology
unknown
Capsicum annuum
(species)
Capsicum chinense
(species)
anthocyanin2 (an2)
Capsicum chinense
(species)
Published - Accepted by Curator
AOP2
Glucosinolate content
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Kliebenstein DJ; Lambrix VM; Reichelt M ; et al. (2001)
Gene duplication in the diversification of secondary metabolism: tandem 2-oxoglutarate-dependent dio[...]
2 Additional References
GP00000095
AOP2
Q945B5
Physiology
5bp deletion resulting in frameshift N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AOP2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AOP3
Glucosinolate content
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Kliebenstein DJ; Lambrix VM; Reichelt M ; et al. (2001)
Gene duplication in the diversification of secondary metabolism: tandem 2-oxoglutarate-dependent dio[...]
2 Additional References
GP00000096
AOP3
Q9ZTA1
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AOP3
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
APJ1
Xenobiotic resistance (alcohol, ethanol)
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Swinnen S; Schaerlaekens K; Pais T ; et al. (2012)
Identification of novel causative genes determining the complex trait of high ethanol tolerance in y[...]
GP00000097
APJ1
P53940
Physiology
unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
APJ1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
APL1 cluster
Pathogen resistance (Plasmodium; malaria parasite)
Unknown,
Unknown
Anopheles gambiae
African malaria mosquito - (species) D
Intraspecific
Linkage Mapping
Riehle MM; Markianos K; Niaré O ; et al. (2006)
Natural malaria infection in Anopheles gambiae is regulated by a single genomic control region.
1 Additional References
GP00000098
APL1A
L7RQU1
Physiology
Not identified
Anopheles gambiae
African malaria mosquito - (species)
Anopheles gambiae
African malaria mosquito - (species) D
APL1 cluster
Anopheles gambiae
African malaria mosquito - (species)
Published - Accepted by Curator
apontic-like
Coloration (larval color pattern)
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Yoda S; Yamaguchi J; Mita K ; et al. (2014)
The transcription factor Apontic-like controls diverse colouration pattern in caterpillars.
2 Additional References
GP00001386
apt
O61602
Morphology
233-kb region around apt-like (pS) refined as 33kb interval in apt-like Intron 1 (+p) with uncharacterized haplotype driving apt-like upregulation in derived phenotypes
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
apontic-like
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
APSR
Sulfate content (shoot)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Loudet O; Saliba-Colombani V; Camilleri C ; et al. (2007)
Natural variation for sulfate content in Arabidopsis thaliana is highly controlled by APR2.
GP00000100
APR2
P92981
Physiology
A399E N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
APSR
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Aquaporin (AQY1)
Growth rate (environment-dependent)
2 Mutations:
Coding
SNP
N
Saccharomyces cerevisiae
baker's yeast - (species) D
Domesticated
Linkage Mapping
Will JL; Kim HS; Clarke J ; et al. (2010)
Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...]
1 Additional References
GP00001872
AQP1
P29972
Physiology
2 mutations
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Aquaporin (AQY1)
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Aquaporin (AQY1)
Growth rate (environment-dependent)
Coding,
Deletion
N
Saccharomyces cerevisiae
baker's yeast - (species) D
Domesticated
Linkage Mapping
Will JL; Kim HS; Clarke J ; et al. (2010)
Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...]
1 Additional References
GP00001874
AQP1
P29972
Physiology
aquaporin yeast 1 gene on chromosome 12 - 955-bp deletion that removes the first 106 bp of AQY1 and its upstream region - GenBank accession numbers for AQY1 and AQY2: GQ848552-74 and GQ870433-54 N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Aquaporin (AQY1)
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Aquaporin (AQY2)
Growth rate (environment-dependent)
Coding,
Deletion
N
Saccharomyces cerevisiae
baker's yeast - (species) D
Domesticated
Linkage Mapping
Will JL; Kim HS; Clarke J ; et al. (2010)
Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...]
1 Additional References
GP00001875
AQP1
P29972
Physiology
aquaporin yeast 2 gene on chromosome 11 - 11-bp deletion that creates a stop codon in the middle of the AQY2 gene - GenBank accession numbers for AQY1 and AQY2: GQ848552-74 and GQ870433-54 N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Aquaporin (AQY2)
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
arcp-1
CO2 avoidance
Aggregation behavior
Coding,
Deletion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Beets I; Zhang G; Fenk LA ; et al. (2019)
Natural Variation in a Dendritic Scaffold Protein Remodels Experience-Dependent Plasticity by Alteri[...]
GP00002067
CELE_F34D10.6
C6KRH4
Behavior
Behavior
8 bp deletion (mfP22) in the open reading frame N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
arcp-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
ARHGAP15
Pathogen resistance (Trypanosoma)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Noyes H; Brass A; Obara I ; et al. (2011)
Genetic and expression analysis of cattle identifies candidate genes in pathways responding to Trypa[...]
GP00000103
Arhgap15
Q811M1
Physiology
H282P
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
ARHGAP15
Bos taurus
cattle - (species)
Published - Accepted by Curator
aristaless
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius cydno
(species) D
Intraspecific
Linkage Mapping
Westerman EL; VanKuren NW; Massardo D ; et al. (2018)
Aristaless Controls Butterfly Wing Color Variation Used in Mimicry and Mate Choice.
GP00002059
al
Q06453
Morphology
gain of expression - exact mutation unknown
Heliconius cydno
(species)
Heliconius cydno
(species) D
aristaless
Heliconius cydno
(species)
Published - Accepted by Curator
ASP1
Acetic acid production
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Marullo P; Aigle M; Bely M ; et al. (2007)
Single QTL mapping and nucleotide-level resolution of a physiologic trait in wine Saccharomyces cere[...]
GP00000104
APS1
P35181
Physiology
Asp142His
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
ASP1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
AT5G41740/AT5G41750
Hybrid incompatibility (auto-immune necrosis)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Bomblies K; Lempe J; Epple P ; et al. (2007)
Autoimmune response as a mechanism for a Dobzhansky-Muller-type incompatibility syndrome in plants.
GP00000105
MUF8.2
F4JYI4
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AT5G41740/AT5G41750
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000106
GA20OX1
Q39110
Morphology
Whole gene deletion N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000107
GA20OX1
Q39110
Morphology
-2bp at +297 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000108
GA20OX1
Q39110
Morphology
-1bp "G" at +324 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000109
GA20OX1
Q39110
Morphology
-5bp "G" at +545 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000110
GA20OX1
Q39110
Morphology
-10bp "G" at +784 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000111
GA20OX1
Q39110
Morphology
-29bp at +426 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000112
GA20OX1
Q39110
Morphology
-444bp at +985 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000113
GA20OX1
Q39110
Morphology
+1bp "G" at +256 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000114
GA20OX1
Q39110
Morphology
+7bp "G" at +961 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000115
GA20OX1
Q39110
Morphology
+1bp at +1270 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000116
GA20OX1
Q39110
Morphology
Transposon insertion at +1355 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000117
GA20OX1
Q39110
Morphology
W46* N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
1 Additional References
GP00000118
GA20OX1
Q39110
Morphology
W271* -G816A according to Fig.3 of Xu et al. 1995 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000119
GA20OX1
Q39110
Morphology
E312* N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000120
GA20OX1
Q39110
Morphology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Plant size (dwarfism)
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000121
GA20OX1
Q39110
Morphology
Morphology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000122
GA20OX1
Q39110
Morphology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000123
GA20OX1
Q39110
Morphology
Splice Site mutation G742A
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Luo Y; Dong X; Yu T ; et al. (2015)
A Single Nucleotide Deletion in Gibberellin20-oxidase1 Causes Alpine Dwarfism in Arabidopsis.
GP00001243
GA20OX1
Q39110
Morphology
-1bp at position 184 causing premature stop N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00001685
GA20OX1
Q39110
Morphology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtHKT1
Salt tolerance
Cis-regulatory,
Deletion
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Rus A; Baxter I; Muthukumar B ; et al. (2006)
Natural variants of AtHKT1 enhance Na+ accumulation in two wild populations of Arabidopsis.
1 Additional References
GP00000124
HKT1
Q84TI7
Physiology
725bp deletion of part of upstream repeat region
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtHKT1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtHKT1
Salt tolerance
Cis-regulatory,
Deletion
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Rus A; Baxter I; Muthukumar B ; et al. (2006)
Natural variants of AtHKT1 enhance Na+ accumulation in two wild populations of Arabidopsis.
1 Additional References
GP00000125
HKT1
Q84TI7
Physiology
687bp deletion of part of upstream repeat region
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
AtHKT1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
AtMYC1
Trichome density (leaf)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Symonds VV; Hatlestad G; Lloyd AM (2011)
Natural allelic variation defines a role for ATMYC1: trichome cell fate determination.
1 Additional References
GP00001268
BHLH12
Q8W2F1
Morphology
P189A
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtMYC1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
ATR13
Pathogenicity
Coding,
SNP
Hyaloperonospora parasitica
(species)
Intraspecific
Linkage Mapping
Allen RL; Bittner-Eddy PD; Grenville-Briggs LJ ; et al. (2004)
Host-parasite coevolutionary conflict between Arabidopsis and downy mildew.
1 Additional References
GP00000128
Atr13
Q5G7K8
Physiology
Multiple coding changes - the avirulence allele ATR13‐Maks9 and the virulence allele ATR13‐Emoy2 only encode differences in the C‐terminal domain (in 11 amino acids) - domain swaps show that one or more of the amino acids in Region A are required for recognition and one or more in Region B are required to elicit a full recognition phenotype. - exact causing mutations unknown
Hyaloperonospora parasitica
(species)
Hyaloperonospora parasitica
(species)
ATR13
Hyaloperonospora parasitica
(species)
Published - Accepted by Curator
B2
Coloration (bulb)
Cis-regulatory,
Insertion
N
Allium cepa
onion - (species) D
Domesticated
Linkage Mapping
Jo C; Kim S (2019)
Transposition of a non-autonomous DNA transposon in the gene coding for a bHLH transcription factor [...]
GP00002058
Morphology
577-bp insertion of a transposable element named AcWHITE in the 5′ upstream region of the white allele of B2. A 8-bp target site duplication (GTTATA AC) and a 7-bp terminal inverted repeat (CAAGGTT) were identified at both ends of this insertion - no SNP detected in the coding region N
Allium cepa
onion - (species)
Allium cepa
onion - (species) D
B2
Allium cepa
onion - (species)
Published - Accepted by Curator
B4GALNT2
Fertility (increased ovulation rate)
Cis-regulatory,
Unknown
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Drouilhet L; Mansanet C; Sarry J ; et al. (2013)
The highly prolific phenotype of Lacaune sheep is associated with an ectopic expression of the B4GAL[...]
GP00001979
B4galnt2
Q09199
Physiology
candidate region to 197kb ; putative mutation (g.36938224T>A) in intron 7or (g.37034573A>G) 96 kb away in an intergenic region
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
B4GALNT2
Ovis aries
sheep - (species)
Published - Accepted by Curator
bab
Coloration (abdomen ; sexual trait ; plasticity)
Cis-regulatory,
Deletion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
De Castro S; Peronnet F; Gilles JF ; et al. (2018)
bric à brac (bab), a central player in the gene regulatory network that mediates thermal plasticity [...]
GP00002423
bab1
Q9W0K7
Morphology
a 56-bp deletion that removes two binding sites for Abdominal B (Abd-B), a direct activator of bab, is present in a cis-regulatiry region of bab1 (within the first intron of bab1) in the Dark line.
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
bab
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
bab
Coloration (wing; male ; irridescence)
Cis-regulatory,
Unknown
Interspecific
Linkage Mapping
Ficarrotta V; Hanly JJ; Loh LS ; et al. (2022)
A genetic switch for male UV iridescence in an incipient species pair of sulphur butterflies.
GP00002425
bab1
Q9W0K7
Morphology
no fixed coding variation at the bab locus between the sister species. Lower expression of bab in the irridescent scale species. CRISPR bab mutants show that bab is a negative regulator of irridescent scales.
Colias philodice
clouded sulphur butterfly - (species)
bab
Published - Accepted by Curator
bab1
Coloration (abdomen)
3 Mutations:
Cis-regulatory
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Kopp A; Graze RM; Xu S ; et al. (2003)
Quantitative trait loci responsible for variation in sexually dimorphic traits in Drosophila melanog[...]
1 Additional References
GP00000130
bab1
Q9W0K7
Morphology
3 mutations
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
bab1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
bab2
Fertility (ovariole number)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Green DA; Extavour CG (2012)
Convergent evolution of a reproductive trait through distinct developmental mechanisms in Drosophila[...]
1 Additional References
GP00000132
bab2
Q9W0K4
Physiology
unknown ; loss of function reduces ovariole number
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
bab2
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
BADH2
Fragrance
Coding,
SNP
Glycine max
soybean - (species)
Domesticated
Linkage Mapping
Juwattanasomran R; Somta P; Chankaew S ; et al. (2011)
A SNP in GmBADH2 gene associates with fragrance in vegetable soybean variety "Kaori" and SNAP marker[...]
GP00000133
BADH2
Q84LK3
Physiology
1 amino-acid substitution in conserved enzymatic domain
Glycine max
soybean - (species)
Glycine max
soybean - (species)
BADH2
Glycine max
soybean - (species)
Published - Accepted by Curator
BADH2
Fragrance
Coding,
Deletion
N
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Bradbury LM; Fitzgerald TL; Henry RJ ; et al. (2005)
The gene for fragrance in rice.
1 Additional References
GP00000134
BADH2
Q84LK3
Physiology
8bp deletion resulting in premature stop codon N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
BADH2
Oryza sativa
rice - (species)
Published - Accepted by Curator
Barren inflorescence2 (BIF2)
Plant architecture
Inflorescence architecture
Unknown,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Pressoir G; Brown PJ; Zhu W ; et al. (2009)
Natural variation in maize architecture is mediated by allelic differences at the PINOID co-ortholog[...]
1 Additional References
GP00000135
bif2
A6MW92
Morphology
Morphology
unknown
Zea mays
(species)
Zea mays
(species)
Barren inflorescence2 (BIF2)
Zea mays
(species)
Published - Accepted by Curator
BCMA
Glucosinolate content
Herbivore resistance
3 Mutations:
Boechera stricta
(species)
Intraspecific
Linkage Mapping
Prasad KV; Song BH; Olson-Manning C ; et al. (2012)
A gain-of-function polymorphism controlling complex traits and fitness in nature.
GP00000136
J9QWI9
Physiology
Physiology
3 mutations
Boechera stricta
(species)
Boechera stricta
(species)
BCMA
Boechera stricta
(species)
Published - Accepted by Curator
BCMO1
Carotenoid content
2 Mutations:
Cis-regulatory
SNP
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Le Bihan-Duval E; Nadaf J; Berri C ; et al. (2011)
Detection of a Cis [corrected] eQTL controlling BCMO1 gene expression leads to the identification of[...]
GP00000137
BCO1
Q9HAY6
Morphology; Physiology
2 mutations
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
BCMO1
Gallus gallus
chicken - (species)
Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2
Carotenoid content (yellow serum)
Coding,
SNP
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Berry SD; Davis SR; Beattie EM ; et al. (2009)
Mutation in bovine beta-carotene oxygenase 2 affects milk color.
1 Additional References
GP00000138
BCO2
Q9BYV7
Physiology
c.306G>A ; p.W102* N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
BCO2 = beta-carotene oxygenase 2
Bos taurus
cattle - (species)
Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2
Carotenoid content (skin ; shanks)
Cis-regulatory,
Unknown
Gallus sonneratii
gray junglefowl - (species) D
Gallus gallus
chicken - (species) D
Interspecific
Linkage Mapping
Eriksson J; Larson G; Gunnarsson U ; et al. (2008)
Identification of the yellow skin gene reveals a hybrid origin of the domestic chicken.
1 Additional References
GP00000139
BCO2
Q9BYV7
Morphology; Physiology
Not identified
Gallus gallus
chicken - (species)
Gallus sonneratii
gray junglefowl - (species) D
Gallus gallus
chicken - (species) D
BCO2 = beta-carotene oxygenase 2
Gallus sonneratii
gray junglefowl - (species)
Gallus gallus
chicken - (species)
Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2
Carotenoid content (sexual dichromatism, male-specific)
Unknown,
Unknown
Serinus canaria
common canary - (species)
Intergeneric or Higher
Linkage Mapping
Gazda MA; Araújo PM; Lopes RJ ; et al. (2020)
A genetic mechanism for sexual dichromatism in birds.
GP00002139
BCO2
Q9BYV7
Morphology
Gene expression study suggests a cis-regulatory difference ; and coding mutations are unlikely to be causal
Spinus cucullatus
red siskin - (species)
Serinus canaria
common canary - (species)
BCO2 = beta-carotene oxygenase 2
Serinus canaria
common canary - (species)
Published - Accepted by Curator
benzoic acid/salicylic acid carboxyl methyltransferase (BSMT)
Fragrance
Cis-regulatory,
Unknown
Petunia axillaris
(species) D
Interspecific
Linkage Mapping
Amrad A; Moser M; Mandel T ; et al. (2016)
Gain and Loss of Floral Scent Production through Changes in Structural Genes during Pollinator-Media[...]
GP00001766
BSMT1
Q6XMI3
Physiology
Allele-specific expression in hybrids - de novo expression in P. axillaris
Petunia integrifolia subsp. inflata
(subspecies)
Petunia axillaris
(species) D
benzoic acid/salicylic acid carboxyl methyltransferase (BSMT)
Petunia axillaris
(species)
Published - Accepted by Curator
benzoyl-CoA:benzylalcohol/2-phenylethanol benzoyltransferase (BPBT)
Fragrance
Cis-regulatory,
Unknown
Petunia axillaris
(species) D
Interspecific
Linkage Mapping
Amrad A; Moser M; Mandel T ; et al. (2016)
Gain and Loss of Floral Scent Production through Changes in Structural Genes during Pollinator-Media[...]
GP00001765
BPBT
A0A172W606
Physiology
Allele-specific expression in hybrids - de novo expression in P. axillaris
Petunia integrifolia subsp. inflata
(subspecies)
Petunia axillaris
(species) D
benzoyl-CoA:benzylalcohol/2-phenylethanol benzoyltransferase (BPBT)
Petunia axillaris
(species)
Published - Accepted by Curator
beta-casein
Milk protein content (casein)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Gallinat JL; Qanbari S; Drögemüller C ; et al. (2013)
DNA-based identification of novel bovine casein gene variants.
GP00002025
CSN2
P02666
Physiology
g.87181619A>C c.245A>C p.H82P CAT>CCT
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
beta-casein
Bos taurus
cattle - (species)
Published - Accepted by Curator
beta-defensin 103 (CBD103)
Coloration (coat)
Coding,
Deletion
Canis lupus familiaris
dog - (subspecies) D
Canis latrans
coyote - (species) D
Canis lupus
gray wolf - (species) D
Domesticated
Linkage Mapping
Candille SI; Kaelin CB; Cattanach BM ; et al. (2007)
A -defensin mutation causes black coat color in domestic dogs.
2 Additional References
GP00000141
CBD103
Q30KV0
Morphology; Physiology
3bp in-frame deletion in exon 2 = deletion of Gly23
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies) D
Canis latrans
coyote - (species) D
Canis lupus
gray wolf - (species) D
beta-defensin 103 (CBD103)
Canis lupus familiaris
dog - (subspecies)
Canis latrans
coyote - (species)
Canis lupus
gray wolf - (species)
Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)
Resistance to UV irradiation (flavonol glycosylation)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Ishihara H; Tohge T; Viehöver P ; et al. (2016)
Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...]
1 Additional References
GP00001263
BGLU6
Q682B4
Physiology
T-> A of a splice site at position 168 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Beta-glucosidase6 (BGLU6)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)
Resistance to UV irradiation (flavonol glycosylation)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Ishihara H; Tohge T; Viehöver P ; et al. (2016)
Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...]
1 Additional References
GP00001264
BGLU6
Q682B4
Physiology
1-bp deletion of a splice site at position 395 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Beta-glucosidase6 (BGLU6)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)
Resistance to UV irradiation (flavonol glycosylation)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ishihara H; Tohge T; Viehöver P ; et al. (2016)
Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...]
1 Additional References
GP00001265
BGLU6
Q682B4
Physiology
GAG to stop codon TAG at position 913 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Beta-glucosidase6 (BGLU6)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)
Resistance to UV irradiation (flavonol glycosylation)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Ishihara H; Tohge T; Viehöver P ; et al. (2016)
Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...]
1 Additional References
GP00001266
BGLU6
Q682B4
Physiology
A deletion of one nucleotide in the seventh exon (BGLU6 CDS position 678) results in a premature stop codon in the accessions Bor-4, Se-0, Uod-1, and Zdr-1. premature stop codon N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Beta-glucosidase6 (BGLU6)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)
Resistance to UV irradiation (flavonol glycosylation)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ishihara H; Tohge T; Viehöver P ; et al. (2016)
Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...]
1 Additional References
GP00001267
BGLU6
Q682B4
Physiology
GAG to stop codon TAG at position 1138 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Beta-glucosidase6 (BGLU6)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Bh4
Coloration (seed hull)
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Zhu BF; Si L; Wang Z ; et al. (2011)
Genetic control of a transition from black to straw-white seed hull in rice domestication.
1 Additional References
GP00000143
Bh4
A0A0H3ZGK8
Morphology
22-bp deletion N
Oryza rufipogon
(species)
Oryza sativa
rice - (species) D
Bh4
Oryza sativa
rice - (species)
Published - Accepted by Curator
Bm-iAANAT
Coloration (larva)
Coding,
Deletion
N
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Zhan S; Guo Q; Li M ; et al. (2010)
Disruption of an N-acetyltransferase gene in the silkworm reveals a novel role in pigmentation.
1 Additional References
GP00000145
Aanat
D6MKR2
Morphology
126-bp deletion overlapping with end of exon 4 and resulting in misplicing. Linkage analysis and genomic studies have shown that Bombyx arylalkamine-N-acetyl transferase, the homologous gene (Dat) that converts dopamine into N-acetyl dopamine, encodes a precursor of N-acetyl dopamine, sclerotin in Drosophila and it is the gene responsible for mln. N
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Bm-iAANAT
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
BMP receptor IB (BMPRIB)
Fertility (increased ovulation rate)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Mulsant P; Lecerf F; Fabre S ; et al. (2001)
Mutation in bone morphogenetic protein receptor-IB is associated with increased ovulation rate in Bo[...]
GP00000146
BMPR-IB
Q9BDI4
Physiology
g.29382188A>G c.914A>G p.Q305R
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
BMP receptor IB (BMPRIB)
Ovis aries
sheep - (species)
Published - Accepted by Curator
BMP15
Fertility (increased ovulation rate)
Coding,
SNP
N
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Galloway SM; McNatty KP; Cambridge LM ; et al. (2000)
Mutations in an oocyte-derived growth factor gene (BMP15) cause increased ovulation rate and inferti[...]
GP00000147
Bmp15
Q9Z0L4
Physiology
c.67C>T p.Q23* N
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
BMP15
Ovis aries
sheep - (species)
Published - Accepted by Curator
BMP15
Fertility (increased ovulation rate)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Galloway SM; McNatty KP; Cambridge LM ; et al. (2000)
Mutations in an oocyte-derived growth factor gene (BMP15) cause increased ovulation rate and inferti[...]
GP00000148
Bmp15
Q9Z0L4
Physiology
A distinct single T>A transition occurs in FecXI carriers at nucleotide position 92 of the mature peptide . . . The mutation substitutes valine (V) with aspartic acid (D) at residue 31 (residue 299 of unprocessed protein) . . . The FecXI mutation is a non-conservative change in a highly conserved region of the protein
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
BMP15
Ovis aries
sheep - (species)
Published - Accepted by Curator
BMP15
Fertility (increased ovulation rate)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Galloway SM; McNatty KP; Cambridge LM ; et al. (2000)
Mutations in an oocyte-derived growth factor gene (BMP15) cause increased ovulation rate and inferti[...]
GP00002156
Bmp15
Q9Z0L4
Physiology
c.G>A p.C321Y missense nonconservative substitution ; in vitro studies showed that the C53Y mutation was responsible for the impairment of the maturation process of the BMP15 protein resulting in a defective secretion of both the precursor and mature peptide
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
BMP15
Ovis aries
sheep - (species)
Published - Accepted by Curator
BMP2
Fertility (egg production)
Bird head morphology (male comb)
Cis-regulatory,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Johnsson M; Gustafson I; Rubin CJ ; et al. (2012)
A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during d[...]
1 Additional References
GP00000151
BMP2
Q90751
Physiology
Morphology
unknown; but intergenic QTL peak with decomposed effects on expression of BMP2 and HAO1
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
BMP2
Gallus gallus
chicken - (species)
Published - Accepted by Curator
BMP4 (uncertain)
Cranio-facial morphology
Unknown,
Unknown
Maylandia zebra
zebra mbuna - (species)
Interspecific
Linkage Mapping
Albertson RC; Streelman JT; Kocher TD ; et al. (2005)
Integration and evolution of the cichlid mandible: the molecular basis of alternate feeding strategi[...]
2 Additional References
GP00000153
bmp4
O13107
Morphology
Not identified
Labeotropheus fuelleborni
blue mbuna - (species)
Maylandia zebra
zebra mbuna - (species)
BMP4 (uncertain)
Maylandia zebra
zebra mbuna - (species)
Published - Accepted by Curator
BMP6
Tooth number
Cis-regulatory,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Cleves PA; Ellis NA; Jimenez MT ; et al. (2014)
Evolved tooth gain in sticklebacks is associated with a cis-regulatory allele of Bmp6.
2 Additional References
GP00000154
Bmp6
P20722
Morphology
Candidate enhancer of 190bp recapitulating tooth and fin expression of BMP6
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
BMP6
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
BOLTING TIME CONTROL 1 (BvBTC1)
Flowering time
Cis-regulatory,
Unknown
Beta vulgaris
(species)
Domesticated
Linkage Mapping
Pin PA; Zhang W; Vogt SH ; et al. (2012)
The role of a pseudo-response regulator gene in life cycle adaptation and domestication of beet.
GP00000155
BTC1
I3NN18
Physiology
unknown
Beta vulgaris
(species)
Beta vulgaris
(species)
BOLTING TIME CONTROL 1 (BvBTC1)
Beta vulgaris
(species)
Published - Accepted by Curator
Brassinosteroid-deficient dwarf1 (brd1)
Plant size (height)
Unknown,
Unknown
Zea mays
(species)
Intraspecific
Linkage Mapping
Peiffer JA; Romay MC; Gore MA ; et al. (2014)
The genetic architecture of maize height.
GP00001628
ZEAMMB73_Zm00001d033180
A0A1D6KWT1
Morphology
On chromosome 1 two C>T transitions reduce plant height in 18RIL families
Zea mays
(species)
Zea mays
(species)
Brassinosteroid-deficient dwarf1 (brd1)
Zea mays
(species)
Published - Accepted by Curator
Brevis radix (BRX)
Root size (shorter)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Mouchel CF; Briggs GC; Hardtke CS (2004)
Natural genetic variation in Arabidopsis identifies BREVIS RADIX, a novel regulator of cell prolifer[...]
GP00000157
BRX
Q17TI5
Morphology
premature stop codon in exon 4; TGG>TGA; truncated protein missing approximately two-thirds of the C terminus N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Brevis radix (BRX)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Brevis radix (BRX)
Root growth
Coding,
Deletion
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Beuchat J; Li S; Ragni L ; et al. (2010)
A hyperactive quantitative trait locus allele of Arabidopsis BRX contributes to natural variation in[...]
GP00001262
BRX
Q17TI5
Morphology
21bp deletion at position in spacer 3 (position not given)
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Brevis radix (BRX)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
brittle endosperm2 (Bt2) = endosperm ADP-glucose pyrophosphorylase small subunit
Sweet and brittle seed
Unknown,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Preiss J; Danner S; Summers PS ; et al. (1990)
Molecular Characterization of the Brittle-2 Gene Effect on Maize Endosperm ADPglucose Pyrophosphoryl[...]
GP00000158
bt2
Q84J79
Physiology
Not identified
Zea mays
(species)
Zea mays
(species)
brittle endosperm2 (Bt2) = endosperm ADP-glucose pyrophosphorylase small subunit
Zea mays
(species)
Published - Accepted by Curator
Brix9-2-5/LIN5 invertase
Fruit sugar content
Unknown,
Unknown
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Fridman E; Carrari F; Liu YS ; et al. (2004)
Zooming in on a quantitative trait for tomato yield using interspecific introgressions.
GP00000159
LIN5
P93199
Physiology
Not identified
Solanum pennellii
(species)
Solanum lycopersicum
tomato - (species) D
Brix9-2-5/LIN5 invertase
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
BTN1A1
Pathogen resistance (virus)
Coding,
SNP
N
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Elleder D; Stepanets V; Melder DC ; et al. (2005)
The receptor for the subgroup C avian sarcoma and leukosis viruses, Tvc, is related to mammalian but[...]
GP00002160
BTN1A1
Q13410
Physiology
g.808011C>A c.165C>A p.C55* N
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
BTN1A1
Gallus gallus
chicken - (species)
Published - Accepted by Curator
btr1
Seed shattering (grain dispersal ; retention)
Coding,
Deletion
N
Hordeum vulgare subsp. vulgare
domesticated barley - (subspecies) D
Domesticated
Linkage Mapping
Pourkheirandish M; Hensel G; Kilian B ; et al. (2015)
Evolution of the Grain Dispersal System in Barley.
GP00001445
BTR1
A0A0K1RJT0
Physiology
1bp deletion at position 202 inducing a frameshift N
Hordeum vulgare
(species)
Hordeum vulgare subsp. vulgare
domesticated barley - (subspecies) D
btr1
Hordeum vulgare subsp. vulgare
domesticated barley - (subspecies)
Published - Accepted by Curator
btr2
Seed shattering (grain dispersal ; retention)
Coding,
Deletion
N
Hordeum vulgare subsp. vulgare
domesticated barley - (subspecies) D
Domesticated
Linkage Mapping
Pourkheirandish M; Hensel G; Kilian B ; et al. (2015)
Evolution of the Grain Dispersal System in Barley.
GP00001446
BTR2
A0A0K1RKV9
Physiology
11bp deletion at position 254-264 creating a frameshift N
Hordeum vulgare
(species)
Hordeum vulgare subsp. vulgare
domesticated barley - (subspecies) D
btr2
Hordeum vulgare subsp. vulgare
domesticated barley - (subspecies)
Published - Accepted by Curator
BUL2
Telomere length
Aging
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Kwan EX; Foss E; Kruglyak L ; et al. (2011)
Natural polymorphism in BUL2 links cellular amino acid availability with chronological aging and tel[...]
GP00000166
BUL2
Q03758
Physiology
Physiology
Leu883Phe
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
BUL2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
BvCPSF73-Ia
Bolting time
Coding,
Deletion
N
Beta vulgaris
(species) D
Intraspecific
Linkage Mapping
Tränkner C; Lemnian IM; Emrani N ; et al. (2016)
A Detailed Analysis of the BR Locus Suggests a New Mechanism for Bolting after Winter in Sugar Beet [...]
GP00001411
CPSF73-I
Q9C952
Physiology
2bp deletion causing a frameshift resulting in a two third truncated protein N
Beta vulgaris
(species)
Beta vulgaris
(species) D
BvCPSF73-Ia
Beta vulgaris
(species)
Published - Accepted by Curator
c1
Coloration (seed)
Cis-regulatory,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Hattori T; Vasil V; Rosenkrans L ; et al. (1992)
The Viviparous-1 gene and abscisic acid activate the C1 regulatory gene for anthocyanin biosynthesis[...]
1 Additional References
GP00000167
C1
P10290
Morphology
5bp insertion in the proximal promoter that creates a new binding site for VP1; a transcription factor that regulates kernel maturation; so that the pigment pathway is turned on while the kernel matures; giving blue kernels
Zea mays
(species)
Zea mays
(species) D
c1
Zea mays
(species)
Published - Accepted by Curator
cadherin
Xenobiotic resistance (insecticide; Bt Cry1Ac)
Coding,
Unknown
N
Helicoverpa armigera
cotton bollworm - (species) D
Intraspecific
Linkage Mapping
Xu X; Yu L; Wu Y (2005)
Disruption of a cadherin gene associated with resistance to Cry1Ac {delta}-endotoxin of Bacillus thu[...]
GP00000160
BtR
Q19KJ3
Physiology
premature stop codon in exon 4; truncated protein missing approximately two-thirds of the C terminus N
Helicoverpa armigera
cotton bollworm - (species)
Helicoverpa armigera
cotton bollworm - (species) D
cadherin
Helicoverpa armigera
cotton bollworm - (species)
Published - Accepted by Curator
cadherin
Xenobiotic resistance (insecticide)
Coding,
Insertion
N
Heliothis virescens
tobacco budworm - (species) D
Intraspecific
Linkage Mapping
Gahan LJ; Gould F; Heckel DG (2001)
Identification of a gene associated with Bt resistance in Heliothis virescens.
GP00000161
BtR
Q19KJ3
Physiology
Insertion of retrotransposon N
Heliothis virescens
tobacco budworm - (species)
Heliothis virescens
tobacco budworm - (species) D
cadherin
Heliothis virescens
tobacco budworm - (species)
Published - Accepted by Curator
cadherin
Xenobiotic resistance (insecticide)
Coding,
Deletion
N
Pectinophora gossypiella
pink bollworm - (species) D
Intraspecific
Linkage Mapping
Morin S; Biggs RW; Sisterson MS ; et al. (2003)
Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm.
1 Additional References
GP00000162
BtR
Q19KJ3
Physiology
126bp in-frame deletion N
Pectinophora gossypiella
pink bollworm - (species)
Pectinophora gossypiella
pink bollworm - (species) D
cadherin
Pectinophora gossypiella
pink bollworm - (species)
Published - Accepted by Curator
cadherin
Xenobiotic resistance (insecticide)
Coding,
Deletion
N
Pectinophora gossypiella
pink bollworm - (species) D
Intraspecific
Linkage Mapping
Morin S; Biggs RW; Sisterson MS ; et al. (2003)
Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm.
1 Additional References
GP00000163
BtR
Q19KJ3
Physiology
202bp deletion N
Pectinophora gossypiella
pink bollworm - (species)
Pectinophora gossypiella
pink bollworm - (species) D
cadherin
Pectinophora gossypiella
pink bollworm - (species)
Published - Accepted by Curator
cadherin
Xenobiotic resistance (insecticide)
Coding,
Deletion
Pectinophora gossypiella
pink bollworm - (species) D
Intraspecific
Linkage Mapping
Morin S; Biggs RW; Sisterson MS ; et al. (2003)
Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm.
1 Additional References
GP00000164
BtR
Q19KJ3
Physiology
24bp in-frame deletion
Pectinophora gossypiella
pink bollworm - (species)
Pectinophora gossypiella
pink bollworm - (species) D
cadherin
Pectinophora gossypiella
pink bollworm - (species)
Published - Accepted by Curator
cadherin
Xenobiotic resistance (insecticide)
Coding,
SNP
Pectinophora gossypiella
pink bollworm - (species) D
Intraspecific
Linkage Mapping
Zhang H; Tian W; Zhao J ; et al. (2012)
Diverse genetic basis of field-evolved resistance to Bt cotton in cotton bollworm from China.
GP00000165
BtR
Q19KJ3
Physiology
E1266L R1268E and E1270V - whether each mutation has an effect or only one of them is unknown
Pectinophora gossypiella
pink bollworm - (species)
Pectinophora gossypiella
pink bollworm - (species) D
cadherin
Pectinophora gossypiella
pink bollworm - (species)
Published - Accepted by Curator
Callipyge (CLPG1)
Muscular mass (double-muscling ; paternal effect)
Cis-regulatory,
SNP
Ovis aries
sheep - (species)
Domesticated
Linkage Mapping
Takeda H; Caiment F; Smit M ; et al. (2006)
The callipyge mutation enhances bidirectional long-range DLK1-GTL2 intergenic transcription in cis.
5 Additional References
GP00000168
DIO3
Q6DN07
Morphology; Physiology
1bp change in the regulatory region of the DLK1-GTL2 imprinted gene cluster
Ovis aries
sheep - (species)
Ovis aries
sheep - (species)
Callipyge (CLPG1)
Ovis aries
sheep - (species)
Published - Accepted by Curator
Carotenoid-binding protein (CBP)
Coloration (silk)
Gene Amplification,
Complex Change
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Sakudoh T; Nakashima T; Kuroki Y ; et al. (2011)
Diversity in copy number and structure of a silkworm morphogenetic gene as a result of domestication[...]
1 Additional References
GP00000169
Q1HE01
Morphology
Copy Number Variation (up to 20 copies in B. mori ; only one in the wild form; B. mandarina)
Bombyx mandarina
wild silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Carotenoid-binding protein (CBP)
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
CAST
Meat tenderness
Cis-regulatory,
Unknown
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Nonneman D; Lindholm-Perry AK; Shackelford SD ; et al. (2011)
Predictive markers in calpastatin for tenderness in commercial pig populations.
GP00000170
CAST
P20810
Physiology
4 candidate SNPs in putative enhancers with nuclear factor-binding properties
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
CAST
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Catecholamines up
Bristle number
Lifespan
Locomotor activity
Sleep
Coding,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Carbone MA; Jordan KW; Lyman RF ; et al. (2006)
Phenotypic variation and natural selection at catsup, a pleiotropic quantitative trait gene in Droso[...]
1 Additional References
GP00000172
Catsup
Q9V3A4
Morphology
Physiology
Behavior
Behavior
unknown; but most large-effect variants appear to be coding
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Catecholamines up
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
CBF gene cluster
Temperature tolerance (cold)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Gery C; Zuther E; Schulz E ; et al. (2011)
Natural variation in the freezing tolerance of Arabidopsis thaliana: effects of RNAi-induced CBF dep[...]
GP00000174
B1NSN2
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
CBF gene cluster
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
CBF12
Temperature tolerance (cold)
Coding,
Unknown
Triticum monococcum
(species)
Domesticated
Linkage Mapping
Knox AK; Li C; Vágújfalvi A ; et al. (2008)
Identification of candidate CBF genes for the frost tolerance locus Fr-Am2 in Triticum monococcum.
GP00000175
B1NSN2
Physiology
possibly 5a.a. deletion in DNA binding domain
Triticum monococcum
(species)
Triticum monococcum
(species)
CBF12
Triticum monococcum
(species)
Published - Accepted by Curator
CDKN2A
Coloration (feathers ; sex-linked dilution)
2 Mutations:
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Schwochow Thalmann D; Ring H; Sundström E ; et al. (2017)
The evolution of Sex-linked barring alleles in chickens involves both regulatory and coding changes [...]
1 Additional References
GP00000178
CDKN2A
P42771
Morphology
2 mutations
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
CDKN2A
Gallus gallus
chicken - (species)
Published - Accepted by Curator
CDKN2A
Coloration (feathers ; sex-linked barring)
2 Mutations:
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Schwochow Thalmann D; Ring H; Sundström E ; et al. (2017)
The evolution of Sex-linked barring alleles in chickens involves both regulatory and coding changes [...]
1 Additional References
GP00002162
CDKN2A
P42771
Morphology
2 mutations
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
CDKN2A
Gallus gallus
chicken - (species)
Published - Accepted by Curator
CENTRORADIALIS (HvCEN)
Flowering time
Seasonal growth
Coding,
SNP
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Comadran J; Kilian B; Russell J ; et al. (2012)
Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and [...]
GP00000179
CEN
Q9ZNV5
Physiology
Physiology
P135A
Hordeum vulgare
(species)
Hordeum vulgare
(species)
CENTRORADIALIS (HvCEN)
Hordeum vulgare
(species)
Published - Accepted by Curator
Cf-2.1 and Cf-2.2
Pathogen resistance (leaf mold fungus ; root parasitic nematode)
Gene Loss,
Deletion
N
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Dixon MS; Jones DA; Keddie JS ; et al. (1996)
The tomato Cf-2 disease resistance locus comprises two functional genes encoding leucine-rich repeat[...]
2 Additional References
GP00000180
Q41398
Physiology
loss of the two genes Cf-2.1 and Cf-2.2 (see Dixon et al. 1998) in cultivated tomato - resistance re-acquired from related species N
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species) D
Cf-2.1 and Cf-2.2
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Cf-4/9
Pathogen resistance
Gene Loss,
Complex Change
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Parniske M; Hammond-Kosack KE; Golstein C ; et al. (1997)
Novel disease resistance specificities result from sequence exchange between tandemly repeated genes[...]
GP00000181
Cf-4A
Q7DLS4
Physiology
partial loss of two gene coding regions located in tandem; resulting in a chimeric gene
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species)
Cf-4/9
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Chalk5
Grain chalkiness
Amylose content
Grain yield
Cis-regulatory,
SNP
Oryza sativa
rice - (species)
Intraspecific
Linkage Mapping
Li Y; Fan C; Xing Y ; et al. (2014)
Chalk5 encodes a vacuolar H(+)-translocating pyrophosphatase influencing grain chalkiness in rice.
GP00001309
Chalk5
A2Y0L3
Morphology
Physiology
Physiology
Two candidate SNPs at positions -721 and - 485 in promoter region
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Chalk5
Oryza sativa
rice - (species)
Published - Accepted by Curator
Chitin synthase 1 (CHS1)
Xenobiotic resistance (insecticide; etoxazole acaricide)
Coding,
SNP
Tetranychus urticae
two-spotted spider mite - (species)
Intraspecific
Linkage Mapping
Demaeght P; Osborne EJ; Odman-Naresh J ; et al. (2014)
High resolution genetic mapping uncovers chitin synthase-1 as the target-site of the structurally di[...]
1 Additional References
GP00001602
chs1
H9U0G2
Physiology
A>T p.I1017F (I1056 in D. melanogaster) located in the C-terminal transmembrane domain
Tetranychus urticae
two-spotted spider mite - (species)
Tetranychus urticae
two-spotted spider mite - (species)
Chitin synthase 1 (CHS1)
Tetranychus urticae
two-spotted spider mite - (species)
Published - Accepted by Curator
CHKov1
Pathogen resistance
Xenobiotic resistance (insecticide)
Coding,
Insertion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Magwire MM; Bayer F; Webster CL ; et al. (2011)
Successive increases in the resistance of Drosophila to viral infection through a transposon inserti[...]
1 Additional References
GP00000182
CHKov1
Q961V7
Physiology
Physiology
Insertion of a Doc TE element resulting in novel; seemingly functional short protein
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
CHKov1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Cinnamate-CoA ligase 1 (CNL1)
Fragrance
3 Mutations:
N
Petunia exserta
(species) D
Interspecific
Linkage Mapping
Amrad A; Moser M; Mandel T ; et al. (2016)
Gain and Loss of Floral Scent Production through Changes in Structural Genes during Pollinator-Media[...]
GP00001391
CNL
A0A172W603
Physiology
3 mutations
Petunia axillaris
(species)
Petunia exserta
(species) D
Cinnamate-CoA ligase 1 (CNL1)
Petunia exserta
(species)
Published - Accepted by Curator
Cinnamate-CoA ligase 1 (CNL1)
Fragrance
Coding,
SNP
N
Capsella rubella
(species) D
Interspecific
Linkage Mapping
Sas C; Müller F; Kappel C ; et al. (2016)
Repeated Inactivation of the First Committed Enzyme Underlies the Loss of Benzaldehyde Emission afte[...]
GP00001767
CNL
A0A172W603
Physiology
serine-to-arginine exchange at position 453 (T-to-A nucleotide exchange at genomic position 7 539 424) - this mutation is located immediately next to highly conserved amino acids predicted to be involved in adenosine monophosphate and coenzyme A binding; it involves two biochemically very dissimilar amino acids; and the serine at this position is conserved N
Capsella grandiflora
(species)
Capsella rubella
(species) D
Cinnamate-CoA ligase 1 (CNL1)
Capsella rubella
(species)
Published - Accepted by Curator
Cinnamate-CoA ligase 1 (CNL1)
Fragrance
Coding,
Deletion
N
Capsella rubella
(species) D
Interspecific
Linkage Mapping
Sas C; Müller F; Kappel C ; et al. (2016)
Repeated Inactivation of the First Committed Enzyme Underlies the Loss of Benzaldehyde Emission afte[...]
GP00001768
CNL
A0A172W603
Physiology
a 4 bp deletion resulting in a frameshift 795 bp downstream of the start codon and causing a premature stop codon N
Capsella grandiflora
(species)
Capsella rubella
(species) D
Cinnamate-CoA ligase 1 (CNL1)
Capsella rubella
(species)
Published - Accepted by Curator
CINNAMOYL CO-A REDUCTASE 1
Fiber content
Coding,
Unknown
N
Brassica napus
rape - (species)
Domesticated
Linkage Mapping
Liu L; Stein A; Wittkop B ; et al. (2012)
A knockout mutation in the lignin biosynthesis gene CCR1 explains a major QTL for acid detergent lig[...]
GP00000186
CCR1
Q9S9N9
Physiology
Frameshift mutation in exon1 N
Brassica napus
rape - (species)
Brassica napus
rape - (species)
CINNAMOYL CO-A REDUCTASE 1
Brassica napus
rape - (species)
Published - Accepted by Curator
CLV3
Fruit size
Cis-regulatory,
Inversion
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Xu C; Liberatore KL; MacAlister CA ; et al. (2015)
A cascade of arabinosyltransferases controls shoot meristem size in tomato.
GP00001565
CLV3
Q9XF04
Morphology
A 294 kb inversion with a breakpoint 1 kb upstream of CLV3
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species) D
CLV3
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
cly1
Pollen shedding (Cleistogamy; lodicule size)
Cis-regulatory,
SNP
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Nair SK; Wang N; Turuspekov Y ; et al. (2010)
Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage[...]
1 Additional References
GP00001314
AP2
P47927
Morphology
A>G @position 3084; in a miRNA targeting site.
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
cly1
Hordeum vulgare
(species)
Published - Accepted by Curator
cly1
Pollen shedding (Cleistogamy; lodicule size)
Cis-regulatory,
SNP
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Nair SK; Wang N; Turuspekov Y ; et al. (2010)
Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage[...]
1 Additional References
GP00001315
AP2
P47927
Morphology
A>C @position 3090; in a miRNA targeting site.
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
cly1
Hordeum vulgare
(species)
Published - Accepted by Curator
cly1
Pollen shedding (Cleistogamy; lodicule size)
Cis-regulatory,
Epigenetic Change
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Wang N; Ning S; Wu J ; et al. (2015)
An epiallele at cly1 affects the expression of floret closing (cleistogamy) in barley.
GP00001316
AP2
P47927
Morphology
T>C @position -245; creating differential methylation
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
cly1
Hordeum vulgare
(species)
Published - Accepted by Curator
CmACS-7
Flower sex determination (male organs)
Coding,
SNP
Cucumis melo
muskmelon - (species)
Domesticated
Linkage Mapping
Boualem A; Fergany M; Fernandez R ; et al. (2008)
A conserved mutation in an ethylene biosynthesis enzyme leads to andromonoecy in melons.
GP00000187
ACS7
Q9STR4
Physiology
A57V
Cucumis melo
muskmelon - (species)
Cucumis melo
muskmelon - (species)
CmACS-7
Cucumis melo
muskmelon - (species)
Published - Accepted by Curator
CmWIP1
Flower sex determination (female vs. hermaphrodite)
Cis-regulatory,
Insertion
Cucumis melo
muskmelon - (species) D
Domesticated
Linkage Mapping
Martin A; Troadec C; Boualem A ; et al. (2009)
A transposon-induced epigenetic change leads to sex determination in melon.
GP00000188
WIP1
Q8GXA4
Physiology
Promoter insertion of a Transcription Factor Binding Site allowing propagation of heritable methylation
Cucumis melo
muskmelon - (species)
Cucumis melo
muskmelon - (species) D
CmWIP1
Cucumis melo
muskmelon - (species)
Published - Accepted by Curator
CNL9 (=Sr35)
Pathogen resistance
Coding,
Complex Change
Triticum monococcum
(species)
Domesticated
Linkage Mapping
Saintenac C; Zhang W; Salcedo A ; et al. (2013)
Identification of wheat gene Sr35 that confers resistance to Ug99 stem rust race group.
GP00000189
Sr35
S5ABD6
Physiology
Coding variation in the LRR domain - a spontaneous gene conversion between CNL4 and CNL9 is the most parsimonious explanation for the three linked mutations in CNL9
Triticum monococcum
(species)
Triticum monococcum
(species)
CNL9 (=Sr35)
Triticum monococcum
(species)
Published - Accepted by Curator
coatomer protein complex subunit alpha (COPA)
Coloration (coat)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Dorshorst B; Henegar C; Liao X ; et al. (2015)
Dominant Red Coat Color in Holstein Cattle Is Associated with a Missense Mutation in the Coatomer Pr[...]
GP00001329
COPA
P53621
Morphology
c.C>T p.Arg160Cys
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
coatomer protein complex subunit alpha (COPA)
Bos taurus
cattle - (species)
Published - Accepted by Curator
colored plant 1
Coloration (seed)
Cis-regulatory,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Radicella JP; Brown D; Tolar LA ; et al. (1992)
Allelic diversity of the maize B regulatory gene: different leader and promoter sequences of two B a[...]
GP00000190
b1
W5S3Q3
Morphology
Not identified
Zea mays
(species)
Zea mays
(species)
colored plant 1
Zea mays
(species)
Published - Accepted by Curator
CORIN
Coloration (coat)
Coding,
SNP
Panthera tigris
tiger - (species) D
Intraspecific
Linkage Mapping
Xu X; Dong GX; Schmidt-Küntzel A ; et al. (2017)
The genetics of tiger pelage color variations.
GP00002169
Corin
Q9Z319
Morphology
c.1759C >T p.H587Y
Panthera tigris
tiger - (species)
Panthera tigris
tiger - (species) D
CORIN
Panthera tigris
tiger - (species)
Published - Accepted by Curator
cortex
Coloration (wing ; industrial melanism ; camouflage)
Cis-regulatory,
Insertion
Biston betularia
pepper-and-salt moth - (species) D
Intraspecific
Linkage Mapping
Van't Hof AE; Campagne P; Rigden DJ ; et al. (2016)
The industrial melanism mutation in British peppered moths is a transposable element.
GP00001804
cort
Q960N3
Morphology
Putative transposon insertion within the first intron ; consists of of ~9 kb tandemly repeated 2.3 times + three short tandem subrepeat units
Biston betularia
pepper-and-salt moth - (species)
Biston betularia
pepper-and-salt moth - (species) D
cortex
Biston betularia
pepper-and-salt moth - (species)
Published - Accepted by Curator
cortex
Coloration (wing ; body)
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species)
Domesticated
Linkage Mapping
Ito K; Katsuma S; Kuwazaki S ; et al. (2016)
Mapping and recombination analysis of two moth colour mutations, Black moth and Wild wing spot, in t[...]
GP00002417
cort
Q960N3
Morphology
Mapping to a 2-Mb-long region which contains the cortex gene.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species)
cortex
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
cortex
Coloration (wing)
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species)
Domesticated
Linkage Mapping
Ito K; Katsuma S; Kuwazaki S ; et al. (2016)
Mapping and recombination analysis of two moth colour mutations, Black moth and Wild wing spot, in t[...]
GP00002418
cort
Q960N3
Morphology
Mapping to a 100-kb-long region which contains the cortex gene.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species)
cortex
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
Couch potato
Diapause
Coding,
SNP
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Schmidt PS; Zhu CT; Das J ; et al. (2008)
An amino acid polymorphism in the couch potato gene forms the basis for climatic adaptation in Droso[...]
GP00000191
cpo
Q01617
Physiology
Ile462Lys
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Couch potato
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
CPR
Xenobiotic resistance
Gene Amplification,
Insertion
Tetranychus urticae
two-spotted spider mite - (species) D
Intraspecific
Linkage Mapping
Fotoukkiaii SM; Wybouw N; Kurlovs AH ; et al. (2021)
High-resolution genetic mapping reveals cis-regulatory and copy number variation in loci associated [...]
GP00002398
Cpr
Q27597
Physiology
Pyflubumide resistant populations are estimated to harbor three CPR copies by two methods, whereas susceptible populations have a single CPR copy.
Tetranychus urticae
two-spotted spider mite - (species)
Tetranychus urticae
two-spotted spider mite - (species) D
CPR
Tetranychus urticae
two-spotted spider mite - (species)
Published - Accepted by Curator
Cryptochrome 2 (CRY2) EDI allele
Flowering time
Fruit shape (fruit length)
Flower morphology (ovule number per fruit)
Fertility (percentage of unfertilized ovules)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
El-Din El-Assal S; Alonso-Blanco C; Peeters AJ ; et al. (2001)
A QTL for flowering time in Arabidopsis reveals a novel allele of CRY2.
3 Additional References
GP00000192
CRY2
Q96524
Physiology
Morphology
Morphology
Physiology
V367M
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Cryptochrome 2 (CRY2) EDI allele
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
csf1
Coloration
Cis-regulatory,
Unknown
Oryzias woworae
(species) D
Interspecific
Linkage Mapping
Ansai S; Mochida K; Fujimoto S ; et al. (2021)
Genome editing reveals fitness effects of a gene for sexual dichromatism in Sulawesian fishes.
GP00002366
CSF1
P09603
Morphology
Oryzias celebensis
Celebes medaka - (species)
Oryzias woworae
(species) D
csf1
Oryzias woworae
(species)
Published - Accepted by Curator
CYC-like HaCYC2c
Flower morphology
Cis-regulatory,
Insertion
Helianthus annuus
common sunflower - (species) D
Intraspecific
Linkage Mapping
Chapman MA; Tang S; Draeger D ; et al. (2012)
Genetic analysis of floral symmetry in Van Gogh's sunflowers reveals independent recruitment of CYCL[...]
GP00000193
CYC
O49250
Morphology
999bp insertion in promoter
Helianthus annuus
common sunflower - (species)
Helianthus annuus
common sunflower - (species) D
CYC-like HaCYC2c
Helianthus annuus
common sunflower - (species)
Published - Accepted by Curator
CYC-like RAY1/RAY2
Flower morphology
Gene Amplification,
Complex Change
Senecio vulgaris
(species)
Intraspecific
Linkage Mapping
Kim M; Cui ML; Cubas P ; et al. (2008)
Regulatory genes control a key morphological and ecological trait transferred between species.
GP00000194
CYC
O49250
Morphology
Gene gain by hybridization
Senecio vulgaris
(species)
Senecio vulgaris
(species)
CYC-like RAY1/RAY2
Senecio vulgaris
(species)
Published - Accepted by Curator
CYCD5;1
Endoreduplication
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Sterken R; Kiekens R; Boruc J ; et al. (2012)
Combined linkage and association mapping reveals CYCD5;1 as a quantitative trait gene for endoredupl[...]
GP00000196
CYCD5-1
Q2V3B2
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
CYCD5;1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Cycloidea (Lcyc)
Flower morphology
Cis-regulatory,
Epigenetic Change
Linaria vulgaris
common toadflax - (species) D
Intraspecific
Linkage Mapping
Cubas P; Vincent C; Coen E (1999)
An epigenetic mutation responsible for natural variation in floral symmetry.
GP00000197
CYC
O49250
Morphology
Stable methylation
Linaria vulgaris
common toadflax - (species)
Linaria vulgaris
common toadflax - (species) D
Cycloidea (Lcyc)
Linaria vulgaris
common toadflax - (species)
Published - Accepted by Curator
CYP(T)
Flower morphology (style length)
Coding,
Insertion
N
Primula vulgaris
(species) D
Intraspecific
Linkage Mapping
Li J; Cocker JM; Wright J ; et al. (2016)
Genetic architecture and evolution of the S locus supergene in Primula vulgaris.
GP00001394
CYP734A1
O48786
Morphology
single base insertion in exon 2 introduces a disruptive premature stop codon N
Primula vulgaris
(species)
Primula vulgaris
(species) D
CYP(T)
Primula vulgaris
(species)
Published - Accepted by Curator
CYP(T)
Flower morphology (style length)
Coding,
SNP
Primula vulgaris
(species) D
Intraspecific
Linkage Mapping
Li J; Cocker JM; Wright J ; et al. (2016)
Genetic architecture and evolution of the S locus supergene in Primula vulgaris.
GP00001395
CYP734A1
O48786
Morphology
G>C p.Asp126His in exon 2
Primula vulgaris
(species)
Primula vulgaris
(species) D
CYP(T)
Primula vulgaris
(species)
Published - Accepted by Curator
Cyp12d1
Xenobiotic resistance (caffeine tolerance)
Gene Amplification,
Insertion
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Najarro MA; Hackett JL; Smith BR ; et al. (2015)
Identifying Loci Contributing to Natural Variation in Xenobiotic Resistance in Drosophila.
GP00000198
Cyp12d1-d
Q7KR10
Physiology
Copy number Variant
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Cyp12d1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Cyp28d1
Xenobiotic resistance (nicotine ; larval stage)
Gene Amplification,
Insertion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Chakraborty M; VanKuren NW; Zhao R ; et al. (2018)
Hidden genetic variation shapes the structure of functional elements in Drosophila.
2 Additional References
GP00001407
Cyp28d1
Q9VMT5
Physiology
insertion of a partial 1.5kb Accord transposable element and a Cyp28d1 gene tandem duplication (CNV - 3754 bp) that may play complementary role in resistance levels
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Cyp28d1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Cyp28d1-Cyp28d2
Xenobiotic resistance (nicotine ; larval stage)
Gene Amplification,
Insertion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Chakraborty M; Emerson JJ; Macdonald SJ ; et al. (2019)
Structural variants exhibit widespread allelic heterogeneity and shape variation in complex traits.
GP00002114
Cyp28d1
Q9VMT5
Physiology
duplication of a 15297-bp region; which encompasses 5 genes: Msp300 Cyp28d2 Cyp28d1 CG7742 and CG14034. Associated with increased expression of Cyp28d1 gene expression and increased nicotin resistance
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Cyp28d1-Cyp28d2
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
CYP2J19
Coloration (feathers)
Unknown,
Unknown
Serinus canaria
common canary - (species)
Interspecific
Linkage Mapping
Lopes RJ; Johnson JD; Toomey MB ; et al. (2016)
Genetic Basis for Red Coloration in Birds.
GP00000201
CYP2J2
P51589
Morphology
unknown
Spinus cucullatus
red siskin - (species)
Serinus canaria
common canary - (species)
CYP2J19
Serinus canaria
common canary - (species)
Published - Accepted by Curator
CYP2J19
Coloration (red vs yellow beak)
Gene Loss,
Deletion
N
Taeniopygia guttata
zebra finch - (species) D
Domesticated
Linkage Mapping
Mundy NI; Stapley J; Bennison C ; et al. (2016)
Red Carotenoid Coloration in the Zebra Finch Is Controlled by a Cytochrome P450 Gene Cluster.
GP00000202
CYP2J2
P51589
Morphology
13kb deletion including complete loss of the CYP2J19A copy and cis-regulatory effects on CYP2J19B N
Taeniopygia guttata
zebra finch - (species)
Taeniopygia guttata
zebra finch - (species) D
CYP2J19
Taeniopygia guttata
zebra finch - (species)
Published - Accepted by Curator
CYP392E8
Xenobiotic resistance
Cis-regulatory,
Unknown
Tetranychus urticae
two-spotted spider mite - (species) D
Intraspecific
Linkage Mapping
Fotoukkiaii SM; Wybouw N; Kurlovs AH ; et al. (2021)
High-resolution genetic mapping reveals cis-regulatory and copy number variation in loci associated [...]
GP00002397
Physiology
increase in transcription of CYP392E8.
Tetranychus urticae
two-spotted spider mite - (species)
Tetranychus urticae
two-spotted spider mite - (species) D
CYP392E8
Tetranychus urticae
two-spotted spider mite - (species)
Published - Accepted by Curator
cyp6d2
Xenobiotic resistance (chemotherapeutic agent, camptothecin)
Coding,
SNP
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Thomas AM; Hui C; South A ; et al. (2013)
Common variants of Drosophila melanogaster Cyp6d2 cause camptothecin sensitivity and synergize with [...]
GP00001983
Cyp6g2
Q9V675
Physiology
G>C in CATAGgtaagga...caagCTCT so that intron 3 is not spliced and the codon GCT (spanning the intron) is transformed into CCT. The splicing is defective and intron 3 is transcribed and results in a stop codon and a protein truncated from its native C terminal part.
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
cyp6d2
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
cyp6g1
Xenobiotic resistance (insecticide)
4 Mutations:
Insertion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Chung H; Bogwitz MR; McCart C ; et al. (2007)
Cis-regulatory elements in the Accord retrotransposon result in tissue-specific expression of the Dr[...]
GP00000207
Cyp6g1
Q9V674
Physiology
4 mutations
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
cyp6g1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
CYP6P9; CYP6P4 cluster
Xenobiotic resistance (insecticide)
5 Mutations:
Anopheles funestus
African malaria mosquito - (species) D
Intraspecific
Linkage Mapping
Wondji CS; Irving H; Morgan J ; et al. (2009)
Two duplicated P450 genes are associated with pyrethroid resistance in Anopheles funestus, a major m[...]
2 Additional References
GP00000209
Q2YH43
Physiology
5 mutations
Anopheles funestus
African malaria mosquito - (species)
Anopheles funestus
African malaria mosquito - (species) D
CYP6P9; CYP6P4 cluster
Anopheles funestus
African malaria mosquito - (species)
Published - Accepted by Curator
CYP76AD1
Coloration
Coding,
Insertion
N
Beta vulgaris
(species) D
Domesticated
Linkage Mapping
Hatlestad GJ; Sunnadeniya RM; Akhavan NA ; et al. (2012)
The beet R locus encodes a new cytochrome P450 required for red betalain production.
GP00000210
CYP76AD1
I3PFJ5
Morphology
5bp insertion resulting in frameshift N
Beta vulgaris
(species)
Beta vulgaris
(species) D
CYP76AD1
Beta vulgaris
(species)
Published - Accepted by Curator
CYP79D15
Toxicity levels (cyanogenic glucoside)
Gene Loss,
Deletion
N
Trifolium repens
white clover - (species) D
Intraspecific
Linkage Mapping
Olsen KM; Hsu SC; Small LL (2008)
Evidence on the molecular basis of the Ac/ac adaptive cyanogenesis polymorphism in white clover (Tri[...]
1 Additional References
GP00000211
CYP79D15
B2Y2T9
Physiology
Gene deletion N
Trifolium repens
white clover - (species)
Trifolium repens
white clover - (species) D
CYP79D15
Trifolium repens
white clover - (species)
Published - Accepted by Curator
CYP81F2
Glucosinolate content
Herbivore resistance (aphids)
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Pfalz M; Vogel H; Kroymann J (2009)
The gene controlling the indole glucosinolate modifier1 quantitative trait locus alters indole gluco[...]
GP00000212
CYP81F2
Q9LVD6
Physiology
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
CYP81F2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
CYP9A186
Xenobiotic resistance (insecticide; avermectin; emamectin benzoate; abamectin)
Coding,
SNP
Spodoptera exigua
beet armyworm - (species) D
Intraspecific
Linkage Mapping
Zuo Y; Shi Y; Zhang F ; et al. (2021)
Genome mapping coupled with CRISPR gene editing reveals a P450 gene confers avermectin resistance in[...]
GP00002393
CYP9A186
A0A8E4AAI2
Physiology
Heterologous expression and in vitro functional assays further confirm that a natural substitution (F116V) found in the substrate recognition site 1 (SRS1) of the CYP9A186 protein results in enhanced metabolism of EB and abamectin
Spodoptera exigua
beet armyworm - (species)
Spodoptera exigua
beet armyworm - (species) D
CYP9A186
Spodoptera exigua
beet armyworm - (species)
Published - Accepted by Curator
Dat
Coloration (puparium)
Unknown,
Unknown
Drosophila virilis
(species)
Interspecific
Linkage Mapping
Ahmed-Braimah YH; Sweigart AL (2015)
A single gene causes an interspecific difference in pigmentation in Drosophila.
GP00001403
AANAT1
Q94521
Morphology
unknown
Drosophila americana
(species)
Drosophila virilis
(species)
Dat
Drosophila virilis
(species)
Published - Accepted by Curator
DCAR-032551
Carotenoid content
Coding,
Insertion
N
Daucus carota
carrot - (species) D
Domesticated
Linkage Mapping
Iorizzo M; Ellison S; Senalik D ; et al. (2016)
A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid[...]
GP00001568
DCAR_032551
A0A162A3G8
Morphology
A 212-nt insertion in exon 2 that creates a frameshift mutation N
Daucus carota
carrot - (species)
Daucus carota
carrot - (species) D
DCAR-032551
Daucus carota
carrot - (species)
Published - Accepted by Curator
DEEPER ROOTING 1
Drought tolerance
Root growth
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Uga Y; Sugimoto K; Ogawa S ; et al. (2013)
Control of root system architecture by DEEPER ROOTING 1 increases rice yield under drought condition[...]
GP00000215
Dro1
Q69P88
Physiology
Morphology
1bp deletion within exon 4 N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
DEEPER ROOTING 1
Oryza sativa
rice - (species)
Published - Accepted by Curator
Delta
Bristle number (abdomen)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Long AD; Lyman RF; Langley CH ; et al. (1998)
Two sites in the Delta gene region contribute to naturally occurring variation in bristle number in [...]
1 Additional References
GP00000216
Dl
P10041
Morphology
unknown; associated site in intron 5
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Delta
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Delta
Bristle number (thorax)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Long AD; Lyman RF; Langley CH ; et al. (1998)
Two sites in the Delta gene region contribute to naturally occurring variation in bristle number in [...]
1 Additional References
GP00000217
Dl
P10041
Morphology
unknown; associated site in intron 2
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Delta
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Delta-1-pyrroline-5-carboxylate synthase A
Drought response (drought-induced proline accumulation)
2 Mutations:
Coding
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Kesari R; Lasky JR; Villamor JG ; et al. (2012)
Intron-mediated alternative splicing of Arabidopsis P5CS1 and its association with natural variation[...]
GP00001280
P5CSA
P54887
Physiology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Delta-1-pyrroline-5-carboxylate synthase A
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
DEP1
Grain yield
Coding,
Indel
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Huang X; Qian Q; Liu Z ; et al. (2009)
Natural variation at the DEP1 locus enhances grain yield in rice.
GP00000218
P0046G12.12-1
Q67UU9
Morphology
replacement of a 637bp stretch of the middle of exon5 by a 12-bp sequence creating a premature stop codon and consequently a loss of 230 residues from the C-terminus N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
DEP1
Oryza sativa
rice - (species)
Published - Accepted by Curator
DEP1 (DENSE AND ERECT PANICLES 1)
Nitrogen use (metabolism)
Coding,
SNP
Oryza sativa Japonica Group
Japanese rice - (no rank)
Domesticated
Linkage Mapping
Sun H; Qian Q; Wu K ; et al. (2014)
Heterotrimeric G proteins regulate nitrogen-use efficiency in rice.
GP00001376
P0046G12.12-1
Q67UU9
Physiology
p.Cys105Tyr affecting affinity interaction between the GGL domain of DEP1 and RGB1 subunit
Oryza sativa Indica Group
long-grained rice - (no rank)
Oryza sativa Japonica Group
Japanese rice - (no rank)
DEP1 (DENSE AND ERECT PANICLES 1)
Oryza sativa Japonica Group
Japanese rice - (no rank)
Published - Accepted by Curator
desaturase 2 (desat2)
Pheromone production
Cis-regulatory,
Deletion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Takahashi A; Tsaur SC; Coyne JA ; et al. (2001)
The nucleotide changes governing cuticular hydrocarbon variation and their evolution in Drosophila m[...]
1 Additional References
GP00000221
Desat2
Q9VG68
Physiology
16bp deletion about 150bp upstream of transcription start site
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
desaturase 2 (desat2)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
diacylglycerol acyltransferase 1 (DGAT1)
Milk fat content
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Grisart B; Coppieters W; Farnir F ; et al. (2002)
Positional candidate cloning of a QTL in dairy cattle: identification of a missense mutation in the [...]
1 Additional References
GP00000222
Dgat1
Q9Z2A7
Physiology
K232A
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
diacylglycerol acyltransferase 1 (DGAT1)
Bos taurus
cattle - (species)
Published - Accepted by Curator
diacylglycerol acyltransferase 1-2 (DGAT1-2)
Oil composition
Oil yield
Coding,
Deletion
Zea mays
(species) D
Domesticated
Linkage Mapping
Zheng P; Allen WB; Roesler K ; et al. (2008)
A phenylalanine in DGAT is a key determinant of oil content and composition in maize.
GP00000223
DGAT1-2
B0LF77
Physiology
Physiology
Deletion of amino acid F469
Zea mays
(species)
Zea mays
(species) D
diacylglycerol acyltransferase 1-2 (DGAT1-2)
Zea mays
(species)
Published - Accepted by Curator
dihydroflavonol reductase (DFR)
Coloration (flowers)
Coding,
SNP
Iochroma cyaneum
(species)
Intraspecific
Linkage Mapping
Smith SD; Rausher MD (2011)
Gene loss and parallel evolution contribute to species difference in flower color.
GP00000225
DFRA
P51102
Morphology
12 candidate a.a. substitution in cluding one at a residue known to influence substrate specificity
Iochroma cyaneum
(species)
Iochroma cyaneum
(species)
dihydroflavonol reductase (DFR)
Iochroma cyaneum
(species)
Published - Accepted by Curator
dihydroflavonol reductase (DFR)
Coloration (tuber skin)
Coding,
Unknown
Solanum tuberosum
potato - (species)
Domesticated
Linkage Mapping
De Jong WS; De Jong DM; De Jong H ; et al. (2003)
An allele of dihydroflavonol 4-reductase associated with the ability to produce red anthocyanin pigm[...]
1 Additional References
GP00000226
DFRA
P51102
Morphology
unknown; 10 a.a variable positions
Solanum tuberosum
potato - (species)
Solanum tuberosum
potato - (species)
dihydroflavonol reductase (DFR)
Solanum tuberosum
potato - (species)
Published - Accepted by Curator
Distal-less
Coloration (wing)
Cis-regulatory,
Unknown
Bicyclus anynana
squinting bush brown - (species)
Domesticated
Linkage Mapping
Beldade P; Brakefield PM; Long AD (2002)
Contribution of Distal-less to quantitative variation in butterfly eyespots.
GP00000229
Dll
P20009
Morphology
unknown
Bicyclus anynana
squinting bush brown - (species)
Bicyclus anynana
squinting bush brown - (species)
Distal-less
Bicyclus anynana
squinting bush brown - (species)
Published - Accepted by Curator
Distorter on the X (Dox)
Sex determination (sex ratio distortion)
Coding,
Deletion
Drosophila simulans
(species) D
Intraspecific
Linkage Mapping
Tao Y; Araripe L; Kingan SB ; et al. (2007)
A sex-ratio meiotic drive system in Drosophila simulans. II: an X-linked distorter.
GP00001969
Physiology
Deletion of 105bp, resulting in the loss of exon III, which deletes one of the 42bp elements that is tandemly repeated in wild-type Dsim\Dox.
Drosophila simulans
(species)
Drosophila simulans
(species) D
Distorter on the X (Dox)
Drosophila simulans
(species)
Published - Accepted by Curator
DMRT3
Gait (ability to pace)
Coding,
SNP
N
Equus caballus
horse - (species)
Domesticated
Linkage Mapping
Andersson LS; Larhammar M; Memic F ; et al. (2012)
Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice.
1 Additional References
GP00000230
DMRT3
F6W2R2
Behavior
g.22999655C>A p.S301* Premature stop codon (Ser301Stop) resulting in truncated protein: a single base change at nucleotide position chr23:22999655 causing a premature stop at codon 301 in DMRT3 (DMRT3_Ser301STOP). The allele is expected to encode a truncated protein lacking 1 N
Equus caballus
horse - (species)
Equus caballus
horse - (species)
DMRT3
Equus caballus
horse - (species)
Published - Accepted by Curator
DOG1 (DELAY OF GERMINATION 1)
Seed dormancy
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Bentsink L; Jowett J; Hanhart CJ ; et al. (2006)
Cloning of DOG1, a quantitative trait locus controlling seed dormancy in Arabidopsis.
3 Additional References
GP00000231
DOG1
A0SVK0
Physiology
Not identified (possibly polyallelic as each cross to the Ler accession showed different DOG1 effects)
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
DOG1 (DELAY OF GERMINATION 1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Dopa-decarboxylase
Bristle number (abdomen)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Mackay TF; Lyman RF (2005)
Drosophila bristles and the nature of quantitative genetic variation.
GP00000232
Ddc
P05031
Morphology
Promoter variation
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Dopa-decarboxylase
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Dopa-decarboxylase
Lifespan
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
De Luca M; Roshina NV; Geiger-Thornsberry GL ; et al. (2003)
Dopa decarboxylase (Ddc) affects variation in Drosophila longevity.
GP00000233
Ddc
P05031
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Dopa-decarboxylase
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Dopamine N-acetyltransferase (Dat)
Coloration (puparium)
Unknown,
Unknown
Drosophila virilis
(species) D
Interspecific
Linkage Mapping
Ahmed-Braimah YH; Sweigart AL (2015)
A single gene causes an interspecific difference in pigmentation in Drosophila.
GP00000234
AANAT1
Q94521
Morphology
Not identified ; 11kb mapped interval including regulatory region and first exon
Drosophila americana
(species)
Drosophila virilis
(species) D
Dopamine N-acetyltransferase (Dat)
Drosophila virilis
(species)
Published - Accepted by Curator
Doublesex
Coloration (wing ; Batesian mimicry)
Unknown,
Unknown
Papilio polytes
common Mormon - (species)
Intraspecific
Linkage Mapping
Kunte K; Zhang W; Tenger-Trolander A ; et al. (2014)
doublesex is a mimicry supergene.
2 Additional References
GP00001966
dsx
P23023
Morphology
More than 1000 nucleotide substitutions differentiate mimetic and non-mimetic dsx alleles. The non-mimetic Cyrus Dsx protein folds much like other insects (such as Bombyx mori) whereas the mimetic polytes protein structure is highly divergent. Knockdown experiments show that female-specific dsx isoforms expressed from the inverted H allele (dsx(H)) induce mimetic coloration patterns and simultaneously repress non-mimetic patterns.
Papilio polytes
common Mormon - (species)
Papilio polytes
common Mormon - (species)
Doublesex
Papilio polytes
common Mormon - (species)
Published - Accepted by Curator
Doublesex (or neighbouring gene prospero)
Wing shape (sex-specific)
Cis-regulatory,
Unknown
Nasonia giraulti
(species)
Interspecific
Linkage Mapping
Loehlin DW; Oliveira DC; Edwards R ; et al. (2010)
Non-coding changes cause sex-specific wing size differences between closely related species of Nason[...]
GP00000236
dsx
P23023
Morphology
various
Nasonia vitripennis
jewel wasp - (species)
Nasonia giraulti
(species)
Doublesex (or neighbouring gene prospero)
Nasonia giraulti
(species)
Published - Accepted by Curator
drh-1
Pathogen resistance (viral immunity)
Coding,
Deletion
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Ashe A; Bélicard T; Le Pen J ; et al. (2013)
A deletion polymorphism in the Caenorhabditis elegans RIG-I homolog disables viral RNA dicing and an[...]
GP00001308
drh-1
G5EDI8
Physiology
159 base deletion in CDS resulting in truncated but potentially non-null protein
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
drh-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
Drip
Fertility
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Bergland AO; Chae HS; Kim YJ ; et al. (2012)
Fine-scale mapping of natural variation in fly fecundity identifies neuronal domain of expression an[...]
GP00000237
Drip
Q9V5Z7
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Drip
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
ds1
Pathogen resistance
Unknown,
Unknown
Sorghum bicolor
sorghum - (species)
Domesticated
Linkage Mapping
Kawahigashi H; Kasuga S; Ando T ; et al. (2011)
Positional cloning of ds1, the target leaf spot resistance gene against Bipolaris sorghicola in sorg[...]
GP00000238
ds1
K0IXC4
Physiology
unknown
Sorghum bicolor
sorghum - (species)
Sorghum bicolor
sorghum - (species)
ds1
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
DTH2
Flowering time
2 Mutations:
Coding
SNP
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Wu W; Zheng XM; Lu G ; et al. (2013)
Association of functional nucleotide polymorphisms at DTH2 with the northward expansion of rice cult[...]
GP00000239
DTH2
O82118
Physiology
2 mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
DTH2
Oryza sativa
rice - (species)
Published - Accepted by Curator
dwarf-8 (d8)
Plant size (dwarfism)
Coding,
Deletion
N
Zea mays
(species) D
Domesticated
Linkage Mapping
Peng J; Richards DE; Hartley NM ; et al. (1999)
'Green revolution' genes encode mutant gibberellin response modulators.
2 Additional References
GP00000241
D8
Q9ST48
Morphology
330bp deletion to V84 N
Zea mays
(species)
Zea mays
(species) D
dwarf-8 (d8)
Zea mays
(species)
Published - Accepted by Curator
EARLY FLOWERING 3 (here = Mat-a)
Flowering time
Coding,
Deletion
N
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Zakhrabekova S; Gough SP; Braumann I ; et al. (2012)
Induced mutations in circadian clock regulator Mat-a facilitated short-season adaptation and range e[...]
GP00000243
ELF3
O82804
Physiology
4bp deletion resulting in truncated protein ; this deletion seem to have evolved multiple times (fragile site?) N
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
EARLY FLOWERING 3 (here = Mat-a)
Hordeum vulgare
(species)
Published - Accepted by Curator
EARLY FLOWERING 3(ELF3)
Flowering time
Coding,
Indel
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Jiménez-Gómez JM; Wallace AD; Maloof JN (2010)
Network analysis identifies ELF3 as a QTL for the shade avoidance response in Arabidopsis.
3 Additional References
GP00000244
ELF3
O82804
Physiology
Background-dependent effects of extensive polyQ coding variation
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
EARLY FLOWERING 3(ELF3)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
EARLY FLOWERING 3(ELF3)
Flowering time (latitudinal adaptation)
Coding,
Deletion
N
Glycine max
soybean - (species) D
Domesticated
Linkage Mapping
Lu S; Zhao X; Hu Y ; et al. (2017)
Natural variation at the soybean J locus improves adaptation to the tropics and enhances yield.
GP00001683
CYP75B1
Q9SD85
Physiology
recessive allele responsible for the LJ trait - 10-bp deletion predicted to cause a frameshift resulting in premature termination of translation after 195 amino acids in the 714-amino-acid protein N
Glycine max
soybean - (species)
Glycine max
soybean - (species) D
EARLY FLOWERING 3(ELF3)
Glycine max
soybean - (species)
Published - Accepted by Curator
EARLY FLOWERING 3(ELF3) [possible pseudo-replicate]
Plant growth (hypocotyl elongation ; temperature-dependent)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Raschke A; Ibañez C; Ullrich KK ; et al. (2015)
Natural variants of ELF3 affect thermomorphogenesis by transcriptionally modulating PIF4-dependent a[...]
GP00001245
ELF3
O82804
Morphology
A362V
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
EARLY FLOWERING 3(ELF3) [possible pseudo-replicate]
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
EARLY FLOWERING 3/ EARLY MATURITY 8
Flowering time
Coding,
SNP
N
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Faure S; Turner AS; Gruszka D ; et al. (2012)
Mutation at the circadian clock gene EARLY MATURITY 8 adapts domesticated barley (Hordeum vulgare) t[...]
GP00000245
ELF3
O82804
Physiology
Premature stop codon; C-to-T point mutation in exon 2 N
Hordeum vulgare
(species)
Hordeum vulgare
(species)
EARLY FLOWERING 3/ EARLY MATURITY 8
Hordeum vulgare
(species)
Published - Accepted by Curator
EARLY FLOWERING 3/ EARLYMATURITY8
Flowering time
Coding,
Deletion
N
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Faure S; Turner AS; Gruszka D ; et al. (2012)
Mutation at the circadian clock gene EARLY MATURITY 8 adapts domesticated barley (Hordeum vulgare) t[...]
GP00000246
ELF3
O82804
Physiology
4bp deletion resulting in truncated protein ; this deletion seem to have evolved multiple times (fragile site?) N
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
EARLY FLOWERING 3/ EARLYMATURITY8
Hordeum vulgare
(species)
Published - Accepted by Curator
EARLY FLOWERING 3/Hd17
Flowering time
Unknown,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Matsubara K; Ogiso-Tanaka E; Hori K ; et al. (2012)
Natural variation in Hd17, a homolog of Arabidopsis ELF3 that is involved in rice photoperiodic flow[...]
GP00000247
ELF3
O82804
Physiology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
EARLY FLOWERING 3/Hd17
Oryza sativa
rice - (species)
Published - Accepted by Curator
Early flowering1 (EL1)
Flowering time (heading date)
Coding,
SNP
Oryza sativa Japonica Group
Japanese rice - (no rank) D
Domesticated
Linkage Mapping
Kwon CT; Yoo SC; Koo BH ; et al. (2014)
Natural variation in Early flowering1 contributes to early flowering in japonica rice under long day[...]
GP00001636
HD16
Q852L0
Physiology
G476C p.Gly159Ala in the serine/threonine kinase domain leading to non-functional protein
Oryza sativa
rice - (species)
Oryza sativa Japonica Group
Japanese rice - (no rank) D
Early flowering1 (EL1)
Oryza sativa Japonica Group
Japanese rice - (no rank)
Published - Accepted by Curator
Early flowering1 (EL1)
Flowering time (heading date)
Coding,
SNP
Oryza sativa Japonica Group
Japanese rice - (no rank) D
Domesticated
Linkage Mapping
Kwon CT; Yoo SC; Koo BH ; et al. (2014)
Natural variation in Early flowering1 contributes to early flowering in japonica rice under long day[...]
GP00001637
HD16
Q852L0
Physiology
G991A p.Ala331Thr in the serine/threonine kinase domain leading to non-functional protein
Oryza sativa
rice - (species)
Oryza sativa Japonica Group
Japanese rice - (no rank) D
Early flowering1 (EL1)
Oryza sativa Japonica Group
Japanese rice - (no rank)
Published - Accepted by Curator
ebony
Coloration (abdomen)
Cis-regulatory,
Unknown
Drosophila novamexicana
(species) D
Intraspecific
Linkage Mapping
Wittkopp PJ; Stewart EE; Arnold LL ; et al. (2009)
Intraspecific polymorphism to interspecific divergence: genetics of pigmentation in Drosophila.
1 Additional References
GP00000248
e
O76858
Morphology
Not identified
Drosophila americana
(species)
Drosophila novamexicana
(species) D
ebony
Drosophila novamexicana
(species)
Published - Accepted by Curator
ebony
Coloration (thorax)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Takahashi A; Takahashi K; Ueda R ; et al. (2007)
Natural variation of ebony gene controlling thoracic pigmentation in Drosophila melanogaster.
1 Additional References
GP00000249
e
O76858
Morphology
Not identified
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
ebony
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
ebony
Coloration (posterior abdomen)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Takahashi A; Takano-Shimizu T (2011)
Divergent enhancer haplotype of ebony on inversion In(3R)Payne associated with pigmentation variatio[...]
GP00000252
e
O76858
Morphology
17 nucleotide sites and 2 indels in complete association with the thoracic trident pigmentation intensity in a 13kb region
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
ebony
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
ebony
Coloration (posterior abdomen)
5 Mutations:
Cis-regulatory
SNP
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Rebeiz M; Pool JE; Kassner VA ; et al. (2009)
Stepwise modification of a modular enhancer underlies adaptation in a Drosophila population.
GP00000253
e
O76858
Morphology
5 mutations
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
ebony
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
ebony
Coloration (male-specific)
Cis-regulatory,
SNP
Drosophila malerkotliana
(species)
Intraspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001544
e
O76858
Morphology
5 changes including 4 SNP and 1bp indel in the first intron
Drosophila malerkotliana
(species)
Drosophila malerkotliana
(species)
ebony
Drosophila malerkotliana
(species)
Published - Accepted by Curator
ebony
Coloration (male-specific)
Cis-regulatory,
Unknown
Drosophila pseudoananassae
(species)
Intraspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001545
e
O76858
Morphology
unknown
Drosophila pseudoananassae
(species)
Drosophila pseudoananassae
(species)
ebony
Drosophila pseudoananassae
(species)
Published - Accepted by Curator
ebony
Coloration (male-specific)
Unknown,
Unknown
Drosophila merina
(species)
Interspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001546
e
O76858
Morphology
unknown
Drosophila ercepeae
(species)
Drosophila merina
(species)
ebony
Drosophila merina
(species)
Published - Accepted by Curator
ebony
Coloration (male-specific)
Unknown,
Unknown
Drosophila bipectinata
(species)
Interspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001547
e
O76858
Morphology
unknown
Drosophila parabipectinata
(species)
Drosophila bipectinata
(species)
ebony
Drosophila bipectinata
(species)
Published - Accepted by Curator
ebony
Coloration (abdomen; male)
Cis-regulatory,
Insertion
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Liu Y; Ramos-Womack M; Han C ; et al. (2019)
Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution.
GP00002024
e
O76858
Morphology
insertion of a partial 481 bp fragment related to a transposable element of the helitron class - maybe other causing mutations as well at this ebony locus (including one fixed amino acid change whose phenotypic effect has not been investigated) - increased expression associated with lighter pigmentation
Drosophila yakuba
(species)
Drosophila santomea
(species) D
ebony
Drosophila santomea
(species)
Published - Accepted by Curator
Ectodysplasin (EDA)
Dermal bone (loss of armor plates)
Cis-regulatory,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species) D
Interspecific
Linkage Mapping
Colosimo PF; Hosemann KE; Balabhadra S ; et al. (2005)
Widespread parallel evolution in sticklebacks by repeated fixation of Ectodysplasin alleles.
2 Additional References
GP00000254
Eda
O54693
Morphology
large haplotype- includes a T-> G regulatory change that affect expression based on differential responsiveness to Wnt signaling
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
Ectodysplasin (EDA)
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
EDN3
Coloration (hyperpigmentation)
Gene Amplification,
Complex Change
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Dorshorst B; Molin AM; Rubin CJ ; et al. (2011)
A complex genomic rearrangement involving the endothelin 3 locus causes dermal hyperpigmentation in [...]
3 Additional References
GP00000258
EDN3
P14138
Morphology
Large duplication
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
EDN3
Gallus gallus
chicken - (species)
Published - Accepted by Curator
EGFR
Wing shape (length)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Dworkin I; Palsson A; Gibson G (2005)
Replication of an Egfr-wing shape association in a wild-caught cohort of Drosophila melanogaster.
1 Additional References
GP00000259
Egfr
P04412
Morphology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
EGFR
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Ehd1 (Response regulator)
Flowering time
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Doi K; Izawa T; Fuse T ; et al. (2004)
Ehd1, a B-type response regulator in rice, confers short-day promotion of flowering and controls FT-[...]
GP00000263
EHD1
Q9H4M9
Physiology
G218R in highly conserved region in GARP domain
Oryza glaberrima
African rice - (species)
Oryza sativa
rice - (species)
Ehd1 (Response regulator)
Oryza sativa
rice - (species)
Published - Accepted by Curator
END3
Temperature tolerance
Virulence
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Intraspecific
Linkage Mapping
Steinmetz LM; Sinha H; Richards DR ; et al. (2002)
Dissecting the architecture of a quantitative trait locus in yeast.
1 Additional References
GP00000267
END3
P39013
Physiology
Physiology
S258N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
END3
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
END3
Temperature tolerance
Virulence
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Intraspecific
Linkage Mapping
Steinmetz LM; Sinha H; Richards DR ; et al. (2002)
Dissecting the architecture of a quantitative trait locus in yeast.
1 Additional References
GP00000268
END3
P39013
Physiology
Physiology
D268N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
END3
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Endothelin receptor B
Coloration (feathers ; white-spotting)
Coding,
SNP
Coturnix japonica
Japanese quail - (species) D
Domesticated
Linkage Mapping
Miwa M; Inoue-Murayama M; Aoki H ; et al. (2007)
Endothelin receptor B2 (EDNRB2) is associated with the panda plumage colour mutation in Japanese qua[...]
GP00000270
Ednrb
P48302
Morphology
c.995G>A p.R332H
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species) D
Endothelin receptor B
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
Endothelin receptor B2
Coloration (feathers)
Coding,
SNP
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Kinoshita K; Akiyama T; Mizutani M ; et al. (2014)
Endothelin receptor B2 (EDNRB2) is responsible for the tyrosinase-independent recessive white (mo(w)[...]
GP00001360
EDNRB2
W8VUK4
Morphology
c.1008G>T p.Cys244Phe
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
Endothelin receptor B2
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Endothelin receptor B2
Coloration (feathers)
Coding,
SNP
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Kinoshita K; Akiyama T; Mizutani M ; et al. (2014)
Endothelin receptor B2 (EDNRB2) is responsible for the tyrosinase-independent recessive white (mo(w)[...]
GP00001361
EDNRB2
W8VUK4
Morphology
c.G1272A p.Arg332His
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
Endothelin receptor B2
Gallus gallus
chicken - (species)
Published - Accepted by Curator
engrailed
Coloration (wing ; Batesian mimicry)
Cis-regulatory,
Unknown
Papilio dardanus
African swallowtail butterfly - (species) D
Intraspecific
Linkage Mapping
Timmermans MJTN; Srivathsan A; Collins S ; et al. (2020)
Mimicry diversification in Papilio dardanus via a genomic inversion in the regulatory region of engr[...]
GP00002428
en
P02836
Morphology
Association with many nucleotide changes in a cis-regulatory region of engrailed. The diverged region exhibits a discrete chromosomal inversion of 40 kb relative to the ancestral orientation that is associated with the cenea morph, but not with the bottom-recessive hippocoonides morph or with non-mimetic allopatric populations.
Papilio dardanus
African swallowtail butterfly - (species)
Papilio dardanus
African swallowtail butterfly - (species) D
engrailed
Papilio dardanus
African swallowtail butterfly - (species)
Published - Accepted by Curator
Enhanced shoot growth under mannitol stress 2 (EGM2)
Plant growth (shoot growth under stress)
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Trontin C; Kiani S; Corwin JA ; et al. (2014)
A pair of receptor-like kinases is responsible for natural variation in shoot growth response to man[...]
GP00001630
At1g11300
Q9SXB4
Physiology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Enhanced shoot growth under mannitol stress 2 (EGM2)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
EOMES (eomesodermin)
Bird head comb (reduced)
Gene Amplification,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Dorshorst B; Harun-Or-Rashid M; Bagherpoor AJ ; et al. (2015)
A genomic duplication is associated with ectopic eomesodermin expression in the embryonic chicken co[...]
GP00000271
Eomes
O54839
Morphology
a 20 Kb tandem duplication containing several conserved putative regulatory elements located 200 Kb upstream of the eomesodermin gene
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
EOMES (eomesodermin)
Gallus gallus
chicken - (species)
Published - Accepted by Curator
ephrin-a4
Coloration (scales)
Unknown,
Unknown
Tropheops sp. 'red cheek'
(species)
Interspecific
Linkage Mapping
Albertson RC; Powder KE; Hu Y ; et al. (2014)
Genetic basis of continuous variation in the levels and modular inheritance of pigmentation in cichl[...]
GP00001420
EFNA4
P52798
Morphology
unknown
Labeotropheus fuelleborni
blue mbuna - (species)
Tropheops sp. 'red cheek'
(species)
ephrin-a4
Tropheops sp. 'red cheek'
(species)
Published - Accepted by Curator
Epithiospecifier Modifier1 (ESM1)
Nitrile content
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Zhang Z; Ober JA; Kliebenstein DJ (2006)
The gene controlling the quantitative trait locus EPITHIOSPECIFIER MODIFIER1 alters glucosinolate hy[...]
GP00000277
ESM1
Q9LJG3
Physiology
Not identified
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Epithiospecifier Modifier1 (ESM1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Epithiospecifier protein (ESP)
Plant secondary metabolite (glucosinolate)
Herbivore resistance
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Lambrix V; Reichelt M; Mitchell-Olds T ; et al. (2001)
The Arabidopsis epithiospecifier protein promotes the hydrolysis of glucosinolates to nitriles and i[...]
GP00000278
ESP
Q8RY71
Physiology
Physiology
Not identified
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Epithiospecifier protein (ESP)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
ERECTA
Plant architecture
Leaf architecture
Transpiration
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Masle J; Gilmore SR; Farquhar GD (2005)
The ERECTA gene regulates plant transpiration efficiency in Arabidopsis.
2 Additional References
GP00000280
ERECTA
Q42371
Morphology
Morphology
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
ERECTA
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
ERECTA
Pathogen resistance (Cucumerina fungus)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Llorente F; Alonso-Blanco C; Sánchez-Rodriguez C ; et al. (2005)
ERECTA receptor-like kinase and heterotrimeric G protein from Arabidopsis are required for resistanc[...]
GP00001244
ERECTA
Q42371
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
ERECTA
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
ESR1
Aggression behavior
Cis-regulatory,
Unknown
Zonotrichia albicollis
white-throated sparrow - (species) D
Intraspecific
Linkage Mapping
Merritt JR; Grogan KE; Zinzow-Kramer WM ; et al. (2020)
A supergene-linked estrogen receptor drives alternative phenotypes in a polymorphic songbird.
GP00002440
Esr1
P19785
Behavior
Increase in expression of the gene in the white-striped morph. Differential allelic expression in heterozygotes.
Zonotrichia albicollis
white-throated sparrow - (species)
Zonotrichia albicollis
white-throated sparrow - (species) D
ESR1
Zonotrichia albicollis
white-throated sparrow - (species)
Published - Accepted by Curator
ETC2
Trichome density (leaf)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Hilscher J; Schlötterer C; Hauser MT (2009)
A single amino acid replacement in ETC2 shapes trichome patterning in natural Arabidopsis population[...]
GP00001237
ETC2
Q84RD1
Morphology
K19E
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
ETC2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
exp-1
Aggregation behavior
Cis-regulatory,
Unknown
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Bendesky A; Pitts J; Rockman MV ; et al. (2012)
Long-range regulatory polymorphisms affecting a GABA receptor constitute a quantitative trait locus [...]
GP00000300
exp-1
G5ECJ0
Behavior
unidentified; 6.2kb wide genetic interval 3' of the exp-1 gene
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
exp-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
FAD2 (BnaA.FAD2.a)
Oil composition
Oil yield
Coding,
Insertion
N
Brassica napus
rape - (species) D
Domesticated
Linkage Mapping
Yang Q; Fan C; Guo Z ; et al. (2012)
Identification of FAD2 and FAD3 genes in Brassica napus genome and development of allele-specific ma[...]
GP00000302
FAD2
P46313
Physiology
Physiology
4bp insertion resulting in frameshift and premature stop codon N
Brassica napus
rape - (species)
Brassica napus
rape - (species) D
FAD2 (BnaA.FAD2.a)
Brassica napus
rape - (species)
Published - Accepted by Curator
Fads2
Fatty acid metabolism (fatty acid desaturation)
Gene Amplification,
Insertion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Interspecific
Linkage Mapping
Ishikawa A; Kabeya N; Ikeya K ; et al. (2019)
A key metabolic gene for recurrent freshwater colonization and radiation in fishes.
GP00001959
fads2
Q9DEX7
Physiology
Fads2 locus is duplicated in G. aculeatus increasing DHA intake and the propensity to invade of freshwater environments. The ancestral copy is on linkage group 19 and the derived copy is on linkage group 12.
Gasterosteus nipponicus
(species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
Fads2
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
FaO-methyl-transferase (FaOMT)
Fragrance (flavor)
Cis-regulatory,
Unknown
Fragaria x ananassa
strawberry - (species)
Domesticated
Linkage Mapping
Zorrilla-Fontanesi Y; Rambla JL; Cabeza A ; et al. (2012)
Genetic analysis of strawberry fruit aroma and identification of O-methyltransferase FaOMT as the lo[...]
GP00000303
omt1
Q9M602
Physiology
Promoter variation _ there are several single nucleotide polymorphisms (SNPs); insertion/deletions (indels); and rearrangements in the promoter
Fragaria x ananassa
strawberry - (species)
Fragaria x ananassa
strawberry - (species)
FaO-methyl-transferase (FaOMT)
Fragaria x ananassa
strawberry - (species)
Published - Accepted by Curator
FAR (pheromone gland FAR)
Pheromone production (isomeric/chirality divergence)
Coding,
Unknown
Ostrinia nubilalis
European corn borer - (species)
Intraspecific
Linkage Mapping
Lassance JM; Groot AT; Liénard MA ; et al. (2010)
Allelic variation in a fatty-acyl reductase gene causes divergence in moth sex pheromones.
2 Additional References
GP00000304
pgFAR
D3U9W3
Physiology
Candidate a.a. substitutions with effect validated in vitro
Ostrinia nubilalis
European corn borer - (species)
Ostrinia nubilalis
European corn borer - (species)
FAR (pheromone gland FAR)
Ostrinia nubilalis
European corn borer - (species)
Published - Accepted by Curator
Fas2
Pupation site choice
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Pischedda A; Shahandeh MP; Turner TL (2020)
The Loci of Behavioral Evolution: Evidence That Fas2 and tilB Underlie Differences in Pupation Site [...]
GP00002345
Fas2
P34082
Behavior
Gene identified via deficiency mapping. RNAi in D. melanogaster leads to pupae pupating closer to the food.
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Fas2
Drosophila simulans
(species)
Published - Accepted by Curator
fasciated
Fruit size
Fruit architecture
Cis-regulatory,
Unknown
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Cong B; Barrero LS; Tanksley SD (2008)
Regulatory change in YABBY-like transcription factor led to evolution of extreme fruit size during t[...]
GP00000305
fasciated
B2YHV8
Morphology
Morphology
Possibly 7-bp and 6- to 8-kb insertion in the first intron
Solanum pennellii
(species)
Solanum lycopersicum
tomato - (species)
fasciated
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
FASCIATED EAR2
Grain yield (kernel row number)
Unknown,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Bommert P; Nagasawa NS; Jackson D (2013)
Quantitative variation in maize kernel row number is controlled by the FASCIATED EAR2 locus.
GP00000306
FEA2
Q940E8
Morphology
Not identified
Zea mays
(species)
Zea mays
(species)
FASCIATED EAR2
Zea mays
(species)
Published - Accepted by Curator
fatty acyl-CoA reductase FAR2-B
Pheromone production (cuticular hydrocarbons)
Unknown,
Unknown
Drosophila serrata
(species)
Intraspecific
Linkage Mapping
Rusuwa BB; Chung H; Allen SL ; et al. (2022)
Natural variation at a single gene generates sexual antagonism across fitness components in Drosophi[...]
GP00002395
Dmel\CG17560
Q9VES6
Physiology
Both alleles of DsFAR2-B appear to be functional. The distinction between the two alleles iss a large number of non-synonymous substitutions.
Drosophila serrata
(species)
Drosophila serrata
(species)
fatty acyl-CoA reductase FAR2-B
Drosophila serrata
(species)
Published - Accepted by Curator
FGF3; FGF4; FGF19; ORAOV1
Coloration (coat; dog Ridgeback phenotype)
Gene Amplification,
Complex Change
Canis lupus familiaris
dog - (subspecies) D
Domesticated
Linkage Mapping
Salmon Hillbertz NH; Isaksson M; Karlsson EK ; et al. (2007)
Duplication of FGF3, FGF4, FGF19 and ORAOV1 causes hair ridge and predisposition to dermoid sinus in[...]
GP00000308
FGF4
J9P3I7
Morphology
Gene duplication
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies) D
FGF3; FGF4; FGF19; ORAOV1
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
FGFR3
Body size (bone length)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Beever JE; Smit MA; Meyers SN ; et al. (2006)
A single-base change in the tyrosine kinase II domain of ovine FGFR3 causes hereditary chondrodyspla[...]
1 Additional References
GP00002184
FGFR3
P22607
Morphology
c.1719T>A p.V700E
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
FGFR3
Ovis aries
sheep - (species)
Published - Accepted by Curator
Fidgetin-like1 (Fignl1)
Testis size (testis weight ; spermatogenesis)
Unknown,
Unknown
Mus musculus
house mouse - (species)
Interspecific
Linkage Mapping
L'Hôte D; Vatin M; Auer J ; et al. (2011)
Fidgetin-like1 is a strong candidate for a dynamic impairment of male meiosis leading to reduced tes[...]
GP00001668
Fignl1
Q8BPY9
Physiology
Several non-synonymous SNPs and an alternative splicing encoding a truncated isoform that may act as a competitor of the full length protein in the degradation process
Mus spretus
western wild mouse - (species)
Mus musculus
house mouse - (species)
Fidgetin-like1 (Fignl1)
Mus musculus
house mouse - (species)
Published - Accepted by Curator
Flavonoid 3'-5'-hydroxylase (F3'5'H)
Plant secondary metabolite (catechin)
Unknown,
Unknown
Camellia sinensis
(species)
Intraspecific
Linkage Mapping
Jin JQ; Ma JQ; Yao MZ ; et al. (2017)
Functional natural allelic variants of flavonoid 3',5'-hydroxylase gene governing catechin traits in[...]
GP00001620
F3'5'H1
A3KLR7
Physiology
several candidate SNPs
Camellia sinensis
(species)
Camellia sinensis
(species)
Flavonoid 3'-5'-hydroxylase (F3'5'H)
Camellia sinensis
(species)
Published - Accepted by Curator
flavonoid 3'-hydroxylase (F3'H)
Coloration (seed; pods)
Coding,
Deletion
N
Glycine max
soybean - (species) D
Domesticated
Linkage Mapping
Toda K; Yang D; Yamanaka N ; et al. (2002)
A single-base deletion in soybean flavonoid 3'-hydroxylase gene is associated with gray pubescence c[...]
1 Additional References
GP00000321
CYP75B1
Q9SD85
Morphology
1bp deletion resulting in frameshift N
Glycine max
soybean - (species)
Glycine max
soybean - (species) D
flavonoid 3'-hydroxylase (F3'H)
Glycine max
soybean - (species)
Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)
Coloration (flowers)
Coding,
SNP
Glycine soja
(species)
Intraspecific
Linkage Mapping
Takahashi R; Dubouzet JG; Matsumura H ; et al. (2010)
A new allele of flower color gene W1 encoding flavonoid 3'5'-hydroxylase is responsible for light pu[...]
GP00000323
CYP75A2
P37120
Morphology
V210M (uncertain); no expression level differences detected
Glycine soja
(species)
Glycine soja
(species)
flavonoid 3';5'-hydroxylase (F3'5'H)
Glycine soja
(species)
Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)
Coloration (flowers)
Gene Loss,
Complex Change
N
Iochroma cyaneum
(species)
Interspecific
Linkage Mapping
Smith SD; Rausher MD (2011)
Gene loss and parallel evolution contribute to species difference in flower color.
GP00000324
CYP75A2
P37120
Morphology
Large deletion N
Iochroma cyaneum
(species)
Iochroma cyaneum
(species)
flavonoid 3';5'-hydroxylase (F3'5'H)
Iochroma cyaneum
(species)
Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)
Coloration (flowers)
Cis-regulatory,
Unknown
Phlox drummondii
(species)
Intraspecific
Linkage Mapping
Hopkins R; Rausher MD (2011)
Identification of two genes causing reinforcement in the Texas wildflower Phlox drummondii.
GP00000325
CYP75A2
P37120
Morphology
unknown
Phlox drummondii
(species)
Phlox drummondii
(species)
flavonoid 3';5'-hydroxylase (F3'5'H)
Phlox drummondii
(species)
Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)
Coloration (flowers)
Coding,
Deletion
N
Pisum sativum
pea - (species) D
Domesticated
Linkage Mapping
Moreau C; Ambrose MJ; Turner L ; et al. (2012)
The B gene of pea encodes a defective flavonoid 3',5'-hydroxylase, and confers pink flower color.
GP00000327
CYP75A2
P37120
Morphology
23bp deletion reuslting in frameshift and truncated protein N
Pisum sativum
pea - (species)
Pisum sativum
pea - (species) D
flavonoid 3';5'-hydroxylase (F3'5'H)
Pisum sativum
pea - (species)
Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)
Coloration (tuber skin)
Cis-regulatory,
Unknown
Solanum tuberosum
potato - (species)
Domesticated
Linkage Mapping
Jung CS; Griffiths HM; De Jong DM ; et al. (2005)
The potato P locus codes for flavonoid 3',5'-hydroxylase.
GP00000328
CYP75A2
P37120
Morphology
unknown
Solanum tuberosum
potato - (species)
Solanum tuberosum
potato - (species)
flavonoid 3';5'-hydroxylase (F3'5'H)
Solanum tuberosum
potato - (species)
Published - Accepted by Curator
FLC (Flowering Locus C)
Flowering time
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Werner JD; Borevitz JO; Uhlenhaut NH ; et al. (2005)
FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions.
1 Additional References
GP00000330
FLC
Q9S7Q7
Physiology
Substitution creating premature Stop (codon 158) N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FLC (Flowering Locus C)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FLC (Flowering Locus C)
Flowering time
2 Mutations:
Cis-regulatory
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Coustham V; Li P; Strange A ; et al. (2012)
Quantitative modulation of polycomb silencing underlies natural variation in vernalization.
1 Additional References
GP00000331
FLC
Q9S7Q7
Physiology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FLC (Flowering Locus C)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FLC (Flowering Locus C)
Flowering time
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Werner JD; Borevitz JO; Uhlenhaut NH ; et al. (2005)
FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions.
1 Additional References
GP00000334
FLC
Q9S7Q7
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FLC (Flowering Locus C)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FLC (Flowering Locus C)
Flowering time
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Werner JD; Borevitz JO; Uhlenhaut NH ; et al. (2005)
FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions.
1 Additional References
GP00000335
FLC
Q9S7Q7
Physiology
GA substitution disrupting Splice Site
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FLC (Flowering Locus C)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FLC (Flowering Locus C)
Flowering time
Cis-regulatory,
Deletion
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Sánchez-Bermejo E; Méndez-Vigo B; Picó FX ; et al. (2012)
Novel natural alleles at FLC and LVR loci account for enhanced vernalization responses in Arabidopsi[...]
1 Additional References
GP00000336
FLC
Q9S7Q7
Physiology
50bp deletion in 5'UTR
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
FLC (Flowering Locus C)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FLC (Flowering Locus C)
Flowering time
Coding,
SNP
Capsella rubella
(species)
Intraspecific
Linkage Mapping
Guo YL; Todesco M; Hagmann J ; et al. (2012)
Independent FLC mutations as causes of flowering-time variation in Arabidopsis thaliana and Capsella[...]
GP00000337
FLC
Q9S7Q7
Physiology
Splice site mutation introducing frameshift; removing the last 35 of 198 amino acids
Capsella rubella
(species)
Capsella rubella
(species)
FLC (Flowering Locus C)
Capsella rubella
(species)
Published - Accepted by Curator
FLC-1
Flowering time
Coding,
SNP
Brassica rapa
field mustard - (species)
Domesticated
Linkage Mapping
Yuan YX; Wu J; Sun RF ; et al. (2009)
A naturally occurring splicing site mutation in the Brassica rapa FLC1 gene is associated with varia[...]
GP00000338
FLC
Q9S7Q7
Physiology
GA substitution disrupting Splice Site
Brassica rapa
field mustard - (species)
Brassica rapa
field mustard - (species)
FLC-1
Brassica rapa
field mustard - (species)
Published - Accepted by Curator
FLC-2
Flowering time
Coding,
Deletion
N
Brassica oleracea
wild cabbage - (species) D
Domesticated
Linkage Mapping
Okazaki K; Sakamoto K; Kikuchi R ; et al. (2007)
Mapping and characterization of FLC homologs and QTL analysis of flowering time in Brassica oleracea[...]
GP00000339
FLC
Q9S7Q7
Physiology
1bp deletion resulting in frameshift N
Brassica oleracea
wild cabbage - (species)
Brassica oleracea
wild cabbage - (species) D
FLC-2
Brassica oleracea
wild cabbage - (species)
Published - Accepted by Curator
FLC-2
Flowering time
Cis-regulatory,
Unknown
Brassica rapa
field mustard - (species)
Domesticated
Linkage Mapping
Zhao J; Kulkarni V; Liu N ; et al. (2010)
BrFLC2 (FLOWERING LOCUS C) as a candidate gene for a vernalization response QTL in Brassica rapa.
GP00000340
FLC
Q9S7Q7
Physiology
unknown
Brassica rapa
field mustard - (species)
Brassica rapa
field mustard - (species)
FLC-2
Brassica rapa
field mustard - (species)
Published - Accepted by Curator
FLM (MAF1)
Flowering time
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Werner JD; Borevitz JO; Warthmann N ; et al. (2005)
Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for[...]
GP00000341
AGL27
Q9AT76
Physiology
Deletion of entire gene N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FLM (MAF1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Flowering locus T (=HvFT=VRN3)
Flowering time
Cis-regulatory,
Unknown
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Yan L; Fu D; Li C ; et al. (2006)
The wheat and barley vernalization gene VRN3 is an orthologue of FT.
GP00000343
FT
Q9SXZ2
Physiology
Regulatory variation in first intron
Hordeum vulgare
(species)
Hordeum vulgare
(species)
Flowering locus T (=HvFT=VRN3)
Hordeum vulgare
(species)
Published - Accepted by Curator
Flowering locus T (=TaFT=VRN3)
Flowering time
Cis-regulatory,
Insertion
Triticum aestivum
bread wheat - (species) D
Domesticated
Linkage Mapping
Yan L; Fu D; Li C ; et al. (2006)
The wheat and barley vernalization gene VRN3 is an orthologue of FT.
GP00000344
FT
Q9SXZ2
Physiology
Retrotranspostion in promoter region
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species) D
Flowering locus T (=TaFT=VRN3)
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
Flowering locus T (FT)
Flowering time
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Kojima S; Takahashi Y; Kobayashi Y ; et al. (2002)
Hd3a, a rice ortholog of the Arabidopsis FT gene, promotes transition to flowering downstream of Hd1[...]
1 Additional References
GP00000345
FT
Q9SXZ2
Physiology
Promoter region
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Flowering locus T (FT)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Flowering locus T (FT1)
Flowering time
Coding,
Deletion
N
Helianthus annuus
common sunflower - (species) D
Domesticated
Linkage Mapping
Blackman BK; Strasburg JL; Raduski AR ; et al. (2010)
The role of recently derived FT paralogs in sunflower domestication.
GP00000346
FT
Q9SXZ2
Physiology
1bp deletion; frameshift N
Helianthus annuus
common sunflower - (species)
Helianthus annuus
common sunflower - (species) D
Flowering locus T (FT1)
Helianthus annuus
common sunflower - (species)
Published - Accepted by Curator
follistatin
Limb morphology (wing dimorphism)
Flight behavior (wing dimorphism)
Gene Amplification,
Insertion
Acyrthosiphon pisum
pea aphid - (species) D
Intraspecific
Linkage Mapping
Li B; Bickel RD; Parker BJ ; et al. (2020)
A large genomic insertion containing a duplicated follistatin gene is linked to the pea aphid male w[...]
GP00002138
Fs
Q86NV3
Morphology
Behavior
the api allele from winged males is a 120kb insertion that includes a copy of the follistatin gene
Acyrthosiphon pisum
pea aphid - (species)
Acyrthosiphon pisum
pea aphid - (species) D
follistatin
Acyrthosiphon pisum
pea aphid - (species)
Published - Accepted by Curator
February 9, 2021 22:00
foraging
Food-search behavior
Cis-regulatory,
SNP
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Osborne KA; Robichon A; Burgess E ; et al. (1997)
Natural behavior polymorphism due to a cGMP-dependent protein kinase of Drosophila.
2 Additional References
GP00000350
for
Q03043
Behavior
The fors (sitter) and forR (rover) alleles differ in a SNP that lies within a predicted Mad protein-binding site in a region upstream of the pr4 transcription start site. The SNP is a C in fors and an A in forR (the latter is predicted to reduce Mad protein binding).
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
foraging
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
FOXL2
Horns absence
Somatic sex change
Cis-regulatory,
Deletion
Capra hircus
goat - (species) D
Domesticated
Linkage Mapping
Pailhoux E; Vigier B; Chaffaux S ; et al. (2001)
A 11.7-kb deletion triggers intersexuality and polledness in goats.
2 Additional References
GP00000352
FOXL2
Q8MIP2
Morphology
Physiology
11.7 kbp deletion of mainly repetitive sequences ; Alters transcription of two flanking genes; but FOXL2 in particular is proposed as the main determinant of the phenotype
Capra hircus
goat - (species)
Capra hircus
goat - (species) D
FOXL2
Capra hircus
goat - (species)
Published - Accepted by Curator
FPN2
Metal tolerance
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Morrissey J; Baxter IR; Lee J ; et al. (2009)
The ferroportin metal efflux proteins function in iron and cobalt homeostasis in Arabidopsis.
GP00000354
IREG2
F4KGN5
Physiology
1bp insertion resulting in frameshift N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
FPN2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FRD3 (FERRIC REDUCTASE DEFECTIVE3)
Metal tolerance
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Pineau C; Loubet S; Lefoulon C ; et al. (2012)
Natural variation at the FRD3 MATE transporter locus reveals cross-talk between Fe homeostasis and Z[...]
GP00000355
DTX43
Q9SFB0
Physiology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FRD3 (FERRIC REDUCTASE DEFECTIVE3)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Frigida (BnaA.FRI.a)
Flowering time
Unknown,
Unknown
Brassica napus
rape - (species)
Domesticated
Linkage Mapping
Wang N; Qian W; Suppanz I ; et al. (2011)
Flowering time variation in oilseed rape (Brassica napus L.) is associated with allelic variation in[...]
GP00000356
FRI
P0DH90
Physiology
unknown
Brassica napus
rape - (species)
Brassica napus
rape - (species)
Frigida (BnaA.FRI.a)
Brassica napus
rape - (species)
Published - Accepted by Curator
Frigida (FRI)
Flowering time
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Johanson U; West J; Lister C ; et al. (2000)
Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering tim[...]
GP00000357
FRI
P0DH90
Physiology
16bp deletion aa313-318 in exon 2 and premature stop codon N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Frigida (FRI)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Frigida (FRI)
Flowering time
Coding,
Indel
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Johanson U; West J; Lister C ; et al. (2000)
Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering tim[...]
1 Additional References
GP00000358
FRI
P0DH90
Physiology
376 bp deletion and 31 bp insertion that delete amino acid 1-15 and at best produce a 45-aa protein N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Frigida (FRI)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Frigida (FRI)
Flowering time
Water use efficiency
Cis-regulatory,
Deletion
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Lovell JT; Juenger TE; Michaels SD ; et al. (2013)
Pleiotropy of FRIGIDA enhances the potential for multivariate adaptation.
GP00000375
FRI
P0DH90
Physiology
Physiology
376 bp deletion within the promoter of the TSU-1 FRI allele
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Frigida (FRI)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Frigida like 1 (FRL1)
Flowering time
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Schläppi MR (2006)
FRIGIDA LIKE 2 is a functional allele in Landsberg erecta and compensates for a nonsense allele of F[...]
GP00000376
FRL1
Q9FFF1
Physiology
E279* in the middle of the conceptual protein sequence N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Frigida like 1 (FRL1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Frigida like 2 (FRL2)
Flowering time
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Schläppi MR (2006)
FRIGIDA LIKE 2 is a functional allele in Landsberg erecta and compensates for a nonsense allele of F[...]
GP00000377
FRL2
Q9C6S2
Physiology
A132P and/or L401Q
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Frigida like 2 (FRL2)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FUMARASE 2
Plant metabolism (fumarate/malate ratio)
Plant growth (bio-mass production)
Cis-regulatory,
Indel
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Riewe D; Jeon HJ; Lisec J ; et al. (2016)
A naturally occurring promoter polymorphism of the Arabidopsis FUM2 gene causes expression variation[...]
1 Additional References
GP00001286
FUM2
Q9FI53
Physiology
Physiology
2068 bp in promotor region @position -395. AND 3833bp in promotor region @position -1107
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FUMARASE 2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
FW2.2
Fruit size
Cis-regulatory,
Unknown
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Frary A; Nesbitt TC; Grandillo S ; et al. (2000)
fw2.2: a quantitative trait locus key to the evolution of tomato fruit size.
1 Additional References
GP00000383
ORFX
Q9LKV7
Morphology
Not identified
Lycopersicon
(subgenus)
Solanum lycopersicum
tomato - (species)
FW2.2
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
G protein-coupled receptor rhodopsin
Diapause
Unknown,
Unknown
Daphnia magna
(species)
Intraspecific
Linkage Mapping
Roulin AC; Bourgeois Y; Stiefel U ; et al. (2016)
A Photoreceptor Contributes to the Natural Variation of Diapause Induction in Daphnia magna.
GP00001539
RHO
P08100
Physiology
unknown
Daphnia magna
(species)
Daphnia magna
(species)
G protein-coupled receptor rhodopsin
Daphnia magna
(species)
Published - Accepted by Curator
GCNF (NR6A1)
Vertebrae number
Coding,
SNP
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Mikawa S; Morozumi T; Shimanuki S ; et al. (2007)
Fine mapping of a swine quantitative trait locus for number of vertebrae and analysis of an orphan n[...]
GP00000386
Nr6a1
Q64249
Morphology
Pro192Leu
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
GCNF (NR6A1)
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
GDF6
Dermal bone size (armor plates)
Cis-regulatory,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Indjeian VB; Kingman GA; Jones FC ; et al. (2016)
Evolving New Skeletal Traits by cis-Regulatory Changes in Bone Morphogenetic Proteins.
GP00000388
GDF6
Q6KF10
Morphology
gain of a flank enhancer activity involving a complex repeat region; 1.2kb L2 LINE insertion; 18 small indels and 89 SNPs - the LINE insertion is required but not sufficient, to produce increased flank expression
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
GDF6
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
GDF7
Feathers (loss)
Cis-regulatory,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Mou C; Pitel F; Gourichon D ; et al. (2011)
Cryptic patterning of avian skin confers a developmental facility for loss of neck feathering.
GP00002185
Gdf7
P43029
Morphology
a large insertion approximately 260kb downstream from the BMP12 gene (now known as GFD7) increasing the expression of this gene in embryonic skin
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
GDF7
Gallus gallus
chicken - (species)
Published - Accepted by Curator
GDF9
Fertility (increased ovulation rate)
Coding,
SNP
Ovis aries
sheep - (species)
Domesticated
Linkage Mapping
Nicol L; Bishop SC; Pong-Wong R ; et al. (2009)
Homozygosity for a single base-pair mutation in the oocyte-specific GDF9 gene results in sterility i[...]
GP00000391
GDF9
O60383
Physiology
g.41841117A>C c.1279A>C p.S427R
Ovis aries
sheep - (species)
Ovis aries
sheep - (species)
GDF9
Ovis aries
sheep - (species)
Published - Accepted by Curator
GDF9
Fertility (increased ovulation rate)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Våge DI; Husdal M; Kent MP ; et al. (2013)
A missense mutation in growth differentiation factor 9 (GDF9) is strongly associated with litter siz[...]
1 Additional References
GP00002186
GDF9
O60383
Physiology
g.41841285G>A c.1111G>A p.V371M
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
GDF9
Ovis aries
sheep - (species)
Published - Accepted by Curator
GDF9
Fertility (increased ovulation rate)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Hanrahan JP; Gregan SM; Mulsant P ; et al. (2004)
Mutations in the genes for oocyte-derived growth factors GDF9 and BMP15 are associated with both inc[...]
GP00002187
GDF9
O60383
Physiology
g.41841212C>T c.1184C>T p.S395F
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
GDF9
Ovis aries
sheep - (species)
Published - Accepted by Curator
Ge-1
Pathogen resistance (sigma virus)
Coding,
Deletion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Cao C; Magwire MM; Bayer F ; et al. (2016)
A Polymorphism in the Processing Body Component Ge-1 Controls Resistance to a Naturally Occurring Rh[...]
GP00001993
Ge-1
Q9VKK1
Physiology
78bp deletion ( 2L:11097925 ..11098002 in both Release 5 and Release 6 coordinates) in the fifth exon of Ge-1 which reduces the length of the serine-rich linker region by 26 amino acid residues
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Ge-1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
gfzf
Hybrid incompatibility (F1 male lethality)
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Phadnis N; Baker EP; Cooper JC ; et al. (2015)
An essential cell cycle regulation gene causes hybrid inviability in Drosophila.
GP00000392
gfzf
Q6NP69
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
gfzf
Drosophila simulans
(species)
Published - Accepted by Curator
Ghd7
Flowering time
Inflorescence morphology
Unknown,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Xue W; Xing Y; Weng X ; et al. (2008)
Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice.
GP00000393
GHD7
E5RQA1
Physiology
Morphology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Ghd7
Oryza sativa
rice - (species)
Published - Accepted by Curator
GIBBERELLIC ACID REQUIRING 1 (GA1)
Flower morphology
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Brock MT; Kover PX; Weinig C (2012)
Natural variation in GA1 associates with floral morphology in Arabidopsis thaliana.
GP00000395
GA1
Q38802
Morphology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
GIBBERELLIC ACID REQUIRING 1 (GA1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
GIGANTEA
Photoperiod response
Circadian rhythm
Coding,
SNP
Brassica rapa
field mustard - (species)
Domesticated
Linkage Mapping
Xie Q; Lou P; Hermand V ; et al. (2015)
Allelic polymorphism of GIGANTEA is responsible for naturally occurring variation in circadian perio[...]
GP00000396
GI
Q9SQI2
Physiology
Physiology
Ser264Ala
Brassica rapa
field mustard - (species)
Brassica rapa
field mustard - (species)
GIGANTEA
Brassica rapa
field mustard - (species)
Published - Accepted by Curator
GL3.1
Grain size
2 Mutations:
Coding
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Qi P; Lin YS; Song XJ ; et al. (2012)
The novel quantitative trait locus GL3.1 controls rice grain size and yield by regulating Cyclin-T1;[...]
GP00000397
GL3
Q9FN69
Morphology
2 mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
GL3.1
Oryza sativa
rice - (species)
Published - Accepted by Curator
GL7
Grain size
Grain quality
Gene Amplification,
Indel
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Wang Y; Xiong G; Hu J ; et al. (2015)
Copy number variation at the GL7 locus contributes to grain size diversity in rice.
GP00001541
LNG1
Q9LF24
Morphology
Physiology
tandem duplication of a 17.1 kb segment containing GL7. Both copies encode exactly the same polypeptide and exhibit similar transcript levels leading to upregulation
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
GL7
Oryza sativa
rice - (species)
Published - Accepted by Curator
glb-5
CO2 avoidance
Aggregation behavior
Coding,
Indel
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
McGrath PT; Rockman MV; Zimmer M ; et al. (2009)
Quantitative mapping of a digenic behavioral trait implicates globin variation in C. elegans sensory[...]
2 Additional References
GP00000399
glb-5
A3RMS5
Behavior
Behavior
765bp insertion/duplication resulting in a truncation of the last 179 amino acids of the protein and the inclusion of 40 different residues N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
glb-5
Caenorhabditis elegans
(species)
Published - Accepted by Curator
GLC-1
Xenobiotic resistance (antihelmintics)
Coding,
Deletion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Ghosh R; Andersen EC; Shapiro JA ; et al. (2012)
Natural variation in a chloride channel subunit confers avermectin resistance in C. elegans.
GP00000400
glc-1
G5EBR3
Physiology
4aa deletion N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
GLC-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
GLO(T)
Flower morphology (anther elevation)
Coding,
Insertion
N
Primula vulgaris
(species) D
Intraspecific
Linkage Mapping
Li J; Cocker JM; Wright J ; et al. (2016)
Genetic architecture and evolution of the S locus supergene in Primula vulgaris.
GP00001393
GLO
Q03378
Morphology
A 2.5 kb retrotransposon in exon 2 severely truncates the protein N
Primula vulgaris
(species)
Primula vulgaris
(species) D
GLO(T)
Primula vulgaris
(species)
Published - Accepted by Curator
glycerol-3-phosphate dehydrogenase (Gpdh)
Enzymatic activity
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Bewley Glenn C (1981
)
Genetic control of the developmental program of L‐glycerol‐3‐phosphate dehydrogenase isozymes in Dro[...]
GP00001992
Gpdh
P13706
Physiology
Exact causal mutation(s) unknown.
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
glycerol-3-phosphate dehydrogenase (Gpdh)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Glypican-3 (Gpc3)
Body size (weight)
Cis-regulatory,
Unknown
Mus musculus
house mouse - (species)
Domesticated
Linkage Mapping
Oliver F; Christians JK; Liu X ; et al. (2005)
Regulatory variation at glypican-3 underlies a major growth QTL in mice.
GP00000407
Gpc3
Q8CFZ4
Physiology
unknown; possible 3'UTR variation
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
Glypican-3 (Gpc3)
Mus musculus
house mouse - (species)
Published - Accepted by Curator
GmHs1-1 (Glyma02g43700.1)
Seed hardness
Seed coat permeability
Coding,
SNP
Glycine max
soybean - (species) D
Domesticated
Linkage Mapping
Sun L; Miao Z; Cai C ; et al. (2015)
GmHs1-1, encoding a calcineurin-like protein, controls hard-seededness in soybean.
GP00001543
Hs1
I1JIK2
Physiology
Physiology
C>T p.Thr>Met predicted to affect the alpha-helix of the protein
Glycine soja
(species)
Glycine max
soybean - (species) D
GmHs1-1 (Glyma02g43700.1)
Glycine max
soybean - (species)
Published - Accepted by Curator
GPA1
Pheromone response
Cell elongation
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Yvert G; Brem RB; Whittle J ; et al. (2003)
Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors.
1 Additional References
GP00000410
GPA1
P08539
Physiology
Physiology
Ser469Ile
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
GPA1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Gr5a
Taste sensitivity (sugar; trehalose)
Coding,
SNP
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Ueno K; Ohta M; Morita H ; et al. (2001)
Trehalose sensitivity in Drosophila correlates with mutations in and expression of the gustatory rec[...]
2 Additional References
GP00001997
Gr5a
Q9W497
Physiology
Nucleotide change: A5681571G - Amino acid change: T218A
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Gr5a
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
GRAIN INCOMPLETE FILLING 1
Grain weight
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Wang E; Wang J; Zhu X ; et al. (2008)
Control of rice grain-filling and yield by a gene with a potential signature of domestication.
GP00000413
CIN2
Q0JDC5
Morphology
unknown
Oryza rufipogon
(species)
Oryza sativa
rice - (species)
GRAIN INCOMPLETE FILLING 1
Oryza sativa
rice - (species)
Published - Accepted by Curator
grassy tillers1
Plant architecture (number of ears)
Cis-regulatory,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Wills DM; Whipple CJ; Takuno S ; et al. (2013)
From many, one: genetic control of prolificacy during maize domestication.
GP00000414
gt1
G1AQA5
Morphology
unknown but narrow 2.7kb interval
Zea mays
(species)
Zea mays
(species)
grassy tillers1
Zea mays
(species)
Published - Accepted by Curator
Growth Hormone Receptor
Milk yield
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Viitala S; Szyda J; Blott S ; et al. (2006)
The role of the bovine growth hormone receptor and prolactin receptor genes in milk, fat and protein[...]
1 Additional References
GP00000416
Ghr
P16882
Physiology
Phe279Tyr
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
Growth Hormone Receptor
Bos taurus
cattle - (species)
Published - Accepted by Curator
GS3
Grain size
Coding,
SNP
N
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Fan C; Xing Y; Mao H ; et al. (2006)
GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, en[...]
1 Additional References
GP00000417
GS3
C6L686
Morphology
C55*;TGC>TGA causing a 178-aa truncation in the C-terminus of the predicted protein N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
GS3
Oryza sativa
rice - (species)
Published - Accepted by Curator
GS5
Grain size
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Li Y; Fan C; Xing Y ; et al. (2011)
Natural variation in GS5 plays an important role in regulating grain size and yield in rice.
GP00000418
GS5
B8AYD6
Morphology
Promoter variation
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
GS5
Oryza sativa
rice - (species)
Published - Accepted by Curator
GSTE1-E10 cluster
Xenobiotic resistance (drug)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Kislukhin G; King EG; Walters KN ; et al. (2013)
The genetic architecture of methotrexate toxicity is similar in Drosophila melanogaster and humans.
GP00000419
GstE1
Q7KK90
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
GSTE1-E10 cluster
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
GW2
Grain size
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Song XJ; Huang W; Shi M ; et al. (2007)
A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase.
GP00000424
GW2
A4GWX9
Morphology
1bp deletion resulting in a premature stop codon in exon 4; the premature stop codon led to truncation of 310 amino acid residues N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
GW2
Oryza sativa
rice - (species)
Published - Accepted by Curator
GW2
Grain size
Coding,
Insertion
N
Triticum aestivum
bread wheat - (species) D
Domesticated
Linkage Mapping
Yang Z; Bai Z; Li X ; et al. (2012)
SNP identification and allelic-specific PCR markers development for TaGW2, a gene linked to wheat ke[...]
GP00000425
GW2
A4GWX9
Morphology
1bp insertion resulting in premature stop codon N
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species) D
GW2
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
GW7
Grain shape
Grain quality
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Wang S; Li S; Liu Q ; et al. (2015)
The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and [...]
GP00001540
TON1A
Q9FQ25
Morphology
Physiology
18 SNPs and 9 indels observed in the promoter region and exon 1 and in particular an 11-bp deletion and 18-bp insertion near GTAC motifs which are normally binded by OsSPL16 repressor (reduced binding increasing transcription)
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
GW7
Oryza sativa
rice - (species)
Published - Accepted by Curator
Ha_BtR
Xenobiotic resistance (insecticide; Bt Cry1Ac toxin)
Coding,
SNP
N
Helicoverpa armigera
cotton bollworm - (species) D
Intraspecific
Linkage Mapping
Zhao J; Jin L; Yang Y ; et al. (2010)
Diverse cadherin mutations conferring resistance to Bacillus thuringiensis toxin Cry1Ac in Helicover[...]
1 Additional References
GP00000426
ABCA2
A0A0S0G7V0
Physiology
Pro53* (161T>A) N
Helicoverpa armigera
cotton bollworm - (species)
Helicoverpa armigera
cotton bollworm - (species) D
Ha_BtR
Helicoverpa armigera
cotton bollworm - (species)
Published - Accepted by Curator
HAC1 (=ATQ1)
Xenobiotic resistance (soil contamination; arsenate)
Unknown,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Sánchez-Bermejo E; Castrillo G; del Llano B ; et al. (2014)
Natural variation in arsenate tolerance identifies an arsenate reductase in Arabidopsis thaliana.
1 Additional References
GP00000434
HAC1
Q9C5X9
Physiology
Coding variation and differential gene expression in roots
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
HAC1 (=ATQ1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
HAC1 (=ATQ1)
Xenobiotic resistance (soil contamination; arsenate)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Chao DY; Chen Y; Chen J ; et al. (2014)
Genome-wide association mapping identifies a new arsenate reductase enzyme critical for limiting ars[...]
GP00000435
HAC1
Q9C5X9
Physiology
1bp deletion resulting in frameshift N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
HAC1 (=ATQ1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
hairy (h)
Bristle number (thorax)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Robin C; Lyman RF; Long AD ; et al. (2002)
hairy: A quantitative trait locus for drosophila sensory bristle number.
GP00000436
h
P14003
Morphology
unknown; complex promoter indel variation shows high-association
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
hairy (h)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
HAO1
Fertility (egg production)
Bird head morphology (male comb)
Cis-regulatory,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Johnsson M; Gustafson I; Rubin CJ ; et al. (2012)
A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during d[...]
1 Additional References
GP00000437
HAO1
E1BRR7
Physiology
Morphology
unknown; but intergenic QTL peak with decomposed effects on expression of BMP2 and HAO1
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
HAO1
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Hd1
Flowering time
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Yano M; Katayose Y; Ashikari M ; et al. (2000)
Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Ara[...]
1 Additional References
GP00000441
HD1
Q9FDX8
Physiology
2bp deletion in the putative exon 2 N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
Hd1
Oryza sativa
rice - (species)
Published - Accepted by Curator
Hd6a
Flowering time
Coding,
SNP
N
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Takahashi Y; Shomura A; Sasaki T ; et al. (2001)
Hd6, a rice quantitative trait locus involved in photoperiod sensitivity, encodes the alpha subunit [...]
GP00000442
HD6
Q9AR27
Physiology
K91*; AAG>TAG N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Hd6a
Oryza sativa
rice - (species)
Published - Accepted by Curator
heavy metal atpase3 (HMA3)
Metal tolerance
2 Mutations:
Coding
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Chao DY; Silva A; Baxter I ; et al. (2012)
Genome-wide association studies identify heavy metal ATPase3 as the primary determinant of natural v[...]
GP00000443
HMA3
P0CW78
Physiology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
heavy metal atpase3 (HMA3)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
heavy metal atpase3 (HMA3)
Metal tolerance
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Chao DY; Silva A; Baxter I ; et al. (2012)
Genome-wide association studies identify heavy metal ATPase3 as the primary determinant of natural v[...]
GP00000444
HMA3
P0CW78
Physiology
1-bp deletion resulting in a premature stop codon resulting in hypofunctional transporter. This is a high-frequency allele; suggesting the hyper-functional alleles are only selected in Cd-rich soils N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
heavy metal atpase3 (HMA3)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
heavy metal atpase3 (HMA3)
Metal tolerance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Ueno D; Yamaji N; Kono I ; et al. (2010)
Gene limiting cadmium accumulation in rice.
GP00000445
HMA3
P0CW78
Physiology
H80R
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
heavy metal atpase3 (HMA3)
Oryza sativa
rice - (species)
Published - Accepted by Curator
heavy metal atpase4 (HMA4)
Metal tolerance
Unknown,
Unknown
Arabidopsis halleri
(species) D
Interspecific
Linkage Mapping
Courbot M; Willems G; Motte P ; et al. (2007)
A major quantitative trait locus for cadmium tolerance in Arabidopsis halleri colocalizes with HMA4,[...]
GP00000447
HMA4
O64474
Physiology
unknown
Arabidopsis lyrata
(species)
Arabidopsis halleri
(species) D
heavy metal atpase4 (HMA4)
Arabidopsis halleri
(species)
Published - Accepted by Curator
heavy metal atpase4 (HMA4)
Metal tolerance
Gene Amplification,
Complex Change
Arabidopsis halleri
(species)
Interspecific
Linkage Mapping
Hanikenne M; Talke IN; Haydon MJ ; et al. (2008)
Evolution of metal hyperaccumulation required cis-regulatory changes and triplication of HMA4.
1 Additional References
GP00000448
HMA4
O64474
Physiology
Gene duplication
Arabidopsis thaliana
thale cress - (species)
Arabidopsis halleri
(species)
heavy metal atpase4 (HMA4)
Arabidopsis halleri
(species)
Published - Accepted by Curator
heavy metal atpase4 (HMA4)
Metal tolerance
Cis-regulatory,
Unknown
Arabidopsis halleri
(species)
Interspecific
Linkage Mapping
Hanikenne M; Talke IN; Haydon MJ ; et al. (2008)
Evolution of metal hyperaccumulation required cis-regulatory changes and triplication of HMA4.
1 Additional References
GP00000449
HMA4
O64474
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis halleri
(species)
heavy metal atpase4 (HMA4)
Arabidopsis halleri
(species)
Published - Accepted by Curator
heavy metal atpase5 (HMA5)
Metal tolerance
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Kobayashi Y; Kuroda K; Kimura K ; et al. (2008)
Amino acid polymorphisms in strictly conserved domains of a P-type ATPase HMA5 are involved in the m[...]
GP00000450
HMA5
Q9SH30
Physiology
P626L
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
heavy metal atpase5 (HMA5)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
heavy metal atpase5 (HMA5)
Metal tolerance
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Kobayashi Y; Kuroda K; Kimura K ; et al. (2008)
Amino acid polymorphisms in strictly conserved domains of a P-type ATPase HMA5 are involved in the m[...]
GP00000451
HMA5
Q9SH30
Physiology
N923T
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
heavy metal atpase5 (HMA5)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
HECW-1
Pathogen avoidance
Coding,
SNP
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Chang HC; Paek J; Kim DH (2011)
Natural polymorphisms in C. elegans HECW-1 E3 ligase affect pathogen avoidance behaviour.
GP00000452
hecw-1
G5EEJ0
Behavior
Y322C
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
HECW-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
HECW-1
Pathogen avoidance
Coding,
SNP
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Chang HC; Paek J; Kim DH (2011)
Natural polymorphisms in C. elegans HECW-1 E3 ligase affect pathogen avoidance behaviour.
GP00000453
hecw-1
G5EEJ0
Behavior
Q325P
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
HECW-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
HM1 = HC toxin reductase (HCTR) [possible pseudo-replicate from other Maize entry]
Pathogen resistance
Coding,
Insertion
N
Zea mays
(species) D
Domesticated
Linkage Mapping
Johal GS; Briggs SP (1992)
Reductase activity encoded by the HM1 disease resistance gene in maize.
1 Additional References
GP00000481
hm1
O49163
Physiology
256-bp transposable element insertion in exon 4 N
Zea mays
(species)
Zea mays
(species) D
HM1 = HC toxin reductase (HCTR) [possible pseudo-replicate from other Maize entry]
Zea mays
(species)
Published - Accepted by Curator
HMGA2
Ear size
Unknown,
Unknown
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Li P; Xiao S; Wei N ; et al. (2012)
Fine mapping of a QTL for ear size on porcine chromosome 5 and identification of high mobility group[...]
GP00000487
HMGA2
P52926
Morphology
unknown
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
HMGA2
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Hooded
Flower morphology
Cis-regulatory,
Insertion
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Müller KJ; Romano N; Gerstner O ; et al. (1995)
The barley Hooded mutation caused by a duplication in a homeobox gene intron.
GP00000488
KNOX3
Q43484
Morphology
305bp duplication in intron 4
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
Hooded
Hordeum vulgare
(species)
Published - Accepted by Curator
Hoxb8
Feather (bird face)
Cis-regulatory,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Guo Y; Gu X; Sheng Z ; et al. (2016)
A Complex Structural Variation on Chromosome 27 Leads to the Ectopic Expression of HOXB8 and the Muf[...]
GP00002193
Hoxb8
P09632
Morphology
Complex Structural Variation with 3 CNVs including a 14.8kb copy of hoxb7 + hoxb8 ; results in ectopic (unrepressed) expression of hoxb8 in feathers especially in the facial region
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
Hoxb8
Gallus gallus
chicken - (species)
Published - Accepted by Curator
HP1D2
Sex determination (sex ratio distortion)
Coding,
Deletion
N
Drosophila simulans
(species) D
Intraspecific
Linkage Mapping
Helleu Q; Gérard PR; Dubruille R ; et al. (2016)
Rapid evolution of a Y-chromosome heterochromatin protein underlies sex chromosome meiotic drive.
GP00001467
HP1D2
B4R6K0
Physiology
deletion of 371bp that removes one-half (371bp) of the HP1D2 coding sequence resulting in a frameshift that prevents the translation of the C-terminal chromo shadow domain (CSD) mediating protein N
Drosophila simulans
(species)
Drosophila simulans
(species) D
HP1D2
Drosophila simulans
(species)
Published - Accepted by Curator
Hs1 = pro-1
Pathogen resistance (parasite, nematodes) (nematodes)
Gene Loss,
Complex Change
N
Beta vulgaris
(species)
Domesticated
Linkage Mapping
Cai D; Kleine M; Kifle S ; et al. (1997)
Positional cloning of a gene for nematode resistance in sugar beet.
GP00000490
HSPRO1
Q9LY61
Physiology
cDNA sequence lacking in genomic DNA N
Patellifolia
(genus)
Beta vulgaris
(species)
Hs1 = pro-1
Beta vulgaris
(species)
Published - Accepted by Curator
HUA2
Flowering time
Shoot morphology
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Wang Q; Sajja U; Rosloski S ; et al. (2007)
HUA2 caused natural variation in shoot morphology of A. thaliana.
GP00000491
HUA2
Q9XER9
Physiology
Morphology
K525E N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
HUA2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
HUA2
Flowering time
Coloration (temperature-dependent)
Coding,
Unknown
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Ilk N; Ding J; Ihnatowicz A ; et al. (2015)
Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...]
1 Additional References
GP00001230
HUA2
Q9XER9
Physiology
Morphology
Premature stop codon resulting in truncation of 290 C-terminal amino-acids (hua-2-5 Ler allele) N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
HUA2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Hybrid male rescue
Hybrid incompatibility (F1 male lethality)
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Brideau NJ; Flores HA; Wang J ; et al. (2006)
Two Dobzhansky-Muller genes interact to cause hybrid lethality in Drosophila.
GP00000495
Hmr
Q86CW5
Physiology
Rapid coding divergence
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Hybrid male rescue
Drosophila simulans
(species)
Published - Accepted by Curator
I cluster
Pathogen resistance
Unknown,
Unknown
Phaseolus vulgaris
(species) D
Domesticated
Linkage Mapping
Vallejos CE; Astua-Monge G; Jones V ; et al. (2006)
Genetic and molecular characterization of the I locus of Phaseolus vulgaris.
GP00000496
U5YMY7
Physiology
unknown; maps to a cluster of R-proteins
Phaseolus vulgaris
(species)
Phaseolus vulgaris
(species) D
I cluster
Phaseolus vulgaris
(species)
Published - Accepted by Curator
ICARUS1
Plant growth (leaf morphology ; temperature-dependent)
Hypersensitive to DNA damage
2 Mutations:
Coding
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Zhu W; Ausin I; Seleznev A ; et al. (2015)
Natural Variation Identifies ICARUS1, a Universal Gene Required for Cell Proliferation and Growth at[...]
GP00002066
ICA1
A0A0F7PXK5
Physiology
Physiology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
ICARUS1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
IGF2BP1
Body size (weight)
Cis-regulatory,
Unknown
Anas platyrhynchos
mallard - (species) D
Domesticated
Linkage Mapping
Zhou Z; Li M; Cheng H ; et al. (2018)
An intercross population study reveals genes associated with body size and plumage color in ducks.
GP00002128
IGF2BP1
O42254
Morphology
We found that the phenotypic values of body size related traits together with IGF2BP1 expression levels were successfully fine-mapped of the causal variation in an ~100-kb region (chr28: 4,413,785-4,513,671) located on the 148 kb upstream of the IGF2BP1 gene
Anas platyrhynchos
mallard - (species)
Anas platyrhynchos
mallard - (species) D
IGF2BP1
Anas platyrhynchos
mallard - (species)
Published - Accepted by Curator
IIL1
Plant growth (pleiotropic growth abnormalities)
Cis-regulatory,
Insertion
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Sureshkumar S; Todesco M; Schneeberger K ; et al. (2009)
A genetic defect caused by a triplet repeat expansion in Arabidopsis thaliana.
1 Additional References
GP00001229
IIL1
Q94AR8
Morphology
expansion of a GAA/TTC trinucleotide repeat in the third intron
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
IIL1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
IL4
Immune response
Cis-regulatory,
SNP
Homo sapiens
human - (species)
Intraspecific
Linkage Mapping
Rockman MV; Hahn MW; Soranzo N ; et al. (2003)
Positive selection on a human-specific transcription factor binding site regulating IL4 expression.
GP00000497
IL4
P05112
Physiology
_524T promoter single base-pair substitution affecting binding of the NFAT transcription factor
Homo sapiens
human - (species)
Homo sapiens
human - (species)
IL4
Homo sapiens
human - (species)
Published - Accepted by Curator
IME1
Sporulation efficiency
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Intraspecific
Linkage Mapping
Gerke J; Lorenz K; Cohen B (2009)
Genetic interactions between transcription factors cause natural variation in yeast.
GP00000498
IME1
P21190
Physiology
L325M and/or 1bp synonymous substitution
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
IME1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
InR
Fertility (ovariole number)
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Green DA; Extavour CG (2012)
Convergent evolution of a reproductive trait through distinct developmental mechanisms in Drosophila[...]
1 Additional References
GP00000500
InR
P09208
Physiology
unknown; loss of function reduces ovariole number
Drosophila sechellia
(species)
Drosophila simulans
(species)
InR
Drosophila simulans
(species)
Published - Accepted by Curator
Insulin-like growth factor 2 (IGF2)
Muscular mass
Fat deposition
Heart size
Cis-regulatory,
SNP
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Van Laere AS; Nguyen M; Braunschweig M ; et al. (2003)
A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig.
GP00000502
Igf2
P09535
Morphology
Physiology
Morphology
1bp change
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
Insulin-like growth factor 2 (IGF2)
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
IRA2
Growth rate (environment-dependent)
Coding,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Smith EN; Kruglyak L (2008)
Gene-environment interaction in yeast gene expression.
GP00000505
IRA2
P19158
Physiology
unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
IRA2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
IRF2BP2
Hair type (woolly)
Cis-regulatory,
Insertion
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Demars J; Cano M; Drouilhet L ; et al. (2017)
Genome-Wide Identification of the Mutation Underlying Fleece Variation and Discriminating Ancestral [...]
GP00002195
IRF2BP2
Q7Z5L9
Morphology
insertion of an antisense EIF2S2 retrogene (asEIF2S2) into the 3′ UTR of the IRF2BP2 gene ; RNA-RNA hybrid creates a long endogenous double-stranded RNA which alters the expression of both EIF2S2 and IRF2BP2 mRNA
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
IRF2BP2
Ovis aries
sheep - (species)
Published - Accepted by Curator
JYalpha
Hybrid incompatibility (F2 male sterility)
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Masly JP; Jones CD; Noor MA ; et al. (2006)
Gene transposition as a cause of hybrid sterility in Drosophila.
GP00000508
JYalpha
A8QI34
Physiology
Gene transposition
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
JYalpha
Drosophila simulans
(species)
Published - Accepted by Curator
KCS18
Oil composition
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Jasinski S; Lécureuil A; Miquel M ; et al. (2012)
Natural variation in seed very long chain fatty acid content is controlled by a new isoform of KCS18[...]
GP00000512
FAE1
Q38860
Physiology
L407V N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
KCS18
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
Gene Amplification,
Complex Change
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Durkin K; Coppieters W; Drögemüller C ; et al. (2012)
Serial translocation by means of circular intermediates underlies colour sidedness in cattle.
GP00000514
Kit
P05532
Morphology
Copy Number Variation of <600kb segments encompassing KIT
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
Kit (type III receptor protein-tyrosine kinase)
Bos taurus
cattle - (species)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
Coding,
SNP
Equus caballus
horse - (species) D
Domesticated
Linkage Mapping
Brooks SA; Bailey E (2005)
Exon skipping in the KIT gene causes a Sabino spotting pattern in horses.
GP00000515
Kit
P05532
Morphology
T->A in intron 16; leads to skipping of exon 17
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
Kit (type III receptor protein-tyrosine kinase)
Equus caballus
horse - (species)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
Coding,
SNP
N
Equus caballus
horse - (species) D
Domesticated
Linkage Mapping
Haase B; Brooks SA; Schlumbaum A ; et al. (2007)
Allelic heterogeneity at the equine KIT locus in dominant white (W) horses.
GP00000516
Kit
P05532
Morphology
c.2151C>G pY717* N
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
Kit (type III receptor protein-tyrosine kinase)
Equus caballus
horse - (species)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
2 Mutations:
Sus scrofa domesticus
domestic pig - (subspecies) D
Domesticated
Linkage Mapping
Marklund S; Kijas J; Rodriguez-Martinez H ; et al. (1998)
Molecular basis for the dominant white phenotype in the domestic pig.
3 Additional References
GP00000520
Kit
P05532
Morphology
2 mutations
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies) D
Kit (type III receptor protein-tyrosine kinase)
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
Cis-regulatory,
Deletion
Vulpes vulpes
red fox - (species) D
Domesticated
Linkage Mapping
Johnson JL; Kozysa A; Kharlamova AV ; et al. (2015)
Platinum coat color in red fox (Vulpes vulpes) is caused by a mutation in an autosomal copy of KIT.
GP00000521
Kit
P05532
Morphology
splice mutation; G to A substitution in the first nucleotide of intron 17; leads to skipping of exon 17.
Vulpes vulpes
red fox - (species)
Vulpes vulpes
red fox - (species) D
Kit (type III receptor protein-tyrosine kinase)
Vulpes vulpes
red fox - (species)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
Cis-regulatory,
Deletion
Sus scrofa domesticus
domestic pig - (subspecies) D
Domesticated
Linkage Mapping
Lim HT; Zhong T; Cho IC ; et al. (2011)
Novel alternative splicing by exon skipping in KIT associated with whole-body roan in an intercrosse[...]
1 Additional References
GP00002227
Kit
P05532
Morphology
U(26) repeat in intron 5 of the KIT gene with a single G interruption likely to mediate skipping of exon 5 of the gene in some tissues including skin ; the WT allele has an U(27) repeat interrupted by 5 G
Sus scrofa domesticus
domestic pig - (subspecies)
Sus scrofa domesticus
domestic pig - (subspecies) D
Kit (type III receptor protein-tyrosine kinase)
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Kit ligand
Coloration (coat)
Coding,
SNP
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Seitz JJ; Schmutz SM; Thue TD ; et al. (1999)
A missense mutation in the bovine MGF gene is associated with the roan phenotype in Belgian Blue and[...]
1 Additional References
GP00000101
KITLG
P21583
Morphology
Ala193Asp ; missense mutation at position 654 - according to OMIA: c.572C>A p.A191N N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Kit ligand
Bos taurus
cattle - (species)
Published - Accepted by Curator
Kit ligand
Coloration (gills; ventrum)
Cis-regulatory,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Linkage Mapping
Miller CT; Beleza S; Pollen AA ; et al. (2007)
cis-Regulatory changes in Kit ligand expression and parallel evolution of pigmentation in sticklebac[...]
GP00000523
KITLG
P21583
Morphology
Not identified
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
Kit ligand
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
KRT6A
Feathers
Coding,
Deletion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Ng CS; Wu P; Foley J ; et al. (2012)
The chicken frizzle feather is due to an α-keratin (KRT75) mutation that causes a defective rachis.
GP00000527
Krt6a
P50446
Morphology
69bp deletion partially overlapping with exon 5
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
KRT6A
Gallus gallus
chicken - (species)
Published - Accepted by Curator
KRT71
Hair type (curly and hairless)
Coding,
Deletion
N
Rattus norvegicus
Norway rat - (species) D
Domesticated
Linkage Mapping
Kuramoto T; Hirano R; Kuwamura M ; et al. (2010)
Identification of the rat Rex mutation as a 7-bp deletion at splicing acceptor site of the Krt71 gen[...]
GP00001729
Krt71
Q9R0H5
Morphology
a 7-bp deletion at the splicing acceptor site of intron 1. The deletion provoked a 6-amino acid in-frame deletion (p.Val149_Gln154del) in the alpha-helical rod domain of KRT71 protein N
Rattus norvegicus
Norway rat - (species)
Rattus norvegicus
Norway rat - (species) D
KRT71
Rattus norvegicus
Norway rat - (species)
Published - Accepted by Curator
L6
Pathogen resistance
Coding,
Insertion
N
Linum usitatissimum
flax - (species)
Intraspecific
Linkage Mapping
Lawrence GJ; Finnegan EJ; Ayliffe MA ; et al. (1995)
The L6 gene for flax rust resistance is related to the Arabidopsis bacterial resistance gene RPS2 an[...]
GP00000528
L6
Q40253
Physiology
Truncated protein due to insertion of a transposable element. Reversion to resistance among descendants of mutant X75 was associated with excision of the newly transposable element Ac. N
Linum usitatissimum
flax - (species)
Linum usitatissimum
flax - (species)
L6
Linum usitatissimum
flax - (species)
Published - Accepted by Curator
lactase (LCT)
Lactose tolerance (adult)
Cis-regulatory,
SNP
Homo sapiens
human - (species)
Intraspecific
Linkage Mapping
Enattah NS; Sahi T; Savilahti E ; et al. (2002)
Identification of a variant associated with adult-type hypolactasia.
1 Additional References
GP00000529
LCT
P09848
Physiology
C-13910T
Homo sapiens
human - (species)
Homo sapiens
human - (species)
lactase (LCT)
Homo sapiens
human - (species)
Published - Accepted by Curator
lactate dehydrogenase-B (Ldh-B)
Stress response
Cis-regulatory,
Unknown
Fundulus heteroclitus
mummichog - (species)
Intraspecific
Linkage Mapping
Schulte PM; Glemet HC; Fiebig AA ; et al. (2000)
Adaptive variation in lactate dehydrogenase-B gene expression: role of a stress-responsive regulator[...]
GP00000533
ldhb
P20373
Physiology
unknown - candidate 1 bp change in southern populatin generates mammary tumor virus glucocorticoid responsive element
Fundulus heteroclitus
mummichog - (species)
Fundulus heteroclitus
mummichog - (species)
lactate dehydrogenase-B (Ldh-B)
Fundulus heteroclitus
mummichog - (species)
Published - Accepted by Curator
Latexin (Lxn)
Stem cell number (hematopoietic precursors)
Cis-regulatory,
Unknown
Mus musculus
house mouse - (species)
Intraspecific
Linkage Mapping
Liang Y; Jansen M; Aronow B ; et al. (2007)
The quantitative trait gene latexin influences the size of the hematopoietic stem cell population in[...]
GP00000534
Lxn
P70202
Morphology
Not identified
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
Latexin (Lxn)
Mus musculus
house mouse - (species)
Published - Accepted by Curator
lbh (limb bud and heart homolog)
Cranio-facial morphology (mandible)
Coding,
SNP
Labeotropheus fuelleborni
blue mbuna - (species) D
Interspecific
Linkage Mapping
Powder KE; Cousin H; McLinden GP ; et al. (2014)
A nonsynonymous mutation in the transcriptional regulator lbh is associated with cichlid craniofacia[...]
GP00001387
LBH
Q53QV2
Morphology
G>A p.R17Q
Maylandia zebra
zebra mbuna - (species)
Labeotropheus fuelleborni
blue mbuna - (species) D
lbh (limb bud and heart homolog)
Labeotropheus fuelleborni
blue mbuna - (species)
Published - Accepted by Curator
LCORL
Body size
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Lindholm-Perry AK; Sexten AK; Kuehn LA ; et al. (2011)
Association, effects and validation of polymorphisms within the NCAPG - LCORL locus located on BTA6 [...]
GP00000535
LCORL
Q8N3X6
Morphology
Not identified
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
LCORL
Bos taurus
cattle - (species)
Published - Accepted by Curator
LCORL
Body size
Unknown,
Unknown
Equus caballus
horse - (species)
Domesticated
Linkage Mapping
Makvandi-Nejad S; Hoffman GE; Allen JJ ; et al. (2012)
Four loci explain 83% of size variation in the horse.
3 Additional References
GP00000536
LCORL
Q8N3X6
Morphology
Not identified
Equus caballus
horse - (species)
Equus caballus
horse - (species)
LCORL
Equus caballus
horse - (species)
Published - Accepted by Curator
Lectin-24A
Pathogen resistance (parasitic wasp)
Cis-regulatory,
Deletion
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022
)
Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite
GP00002655
lectin-24A
Q9VQU4
Physiology
A cis-regulatory polymorphism in the gene Lectin-24A abolishes expression after infection and strongly reduces survival. 21bp indel (c.-171_-151del)
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Lectin-24A
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Lectin-24A
Pathogen resistance (parasitic wasp)
Coding,
Deletion
N
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022
)
Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite
GP00002656
lectin-24A
Q9VQU4
Physiology
a 165bp deletion in the protein coding sequence that results in a shift in the reading frame and a premature stop codon (p.Phe217_Glu273del*) N
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Lectin-24A
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Lectin-24A
Pathogen resistance (parasitic wasp)
Coding,
SNP
N
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022
)
Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite
GP00002657
Physiology
L81 >STOP - point mutation that introduces a premature stop codon N
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Lectin-24A
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Lectin-24A
Pathogen resistance (parasitic wasp)
Coding,
SNP
N
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022
)
Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite
GP00002658
lectin-24A
Q9VQU4
Physiology
Q254 >STOP - point mutation that introduces a premature stop codon N
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Lectin-24A
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Lectin-24A
Pathogen resistance (parasitic wasp)
Coding,
SNP
N
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022
)
Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite
GP00002659
lectin-24A
Q9VQU4
Physiology
F217 >STOP - point mutation that introduces a premature stop codon N
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Lectin-24A
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
LeSPL-CNR
Fruit ripening
Cis-regulatory,
Epigenetic Change
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Manning K; Tör M; Poole M ; et al. (2006)
A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibit[...]
GP00000539
101256245
Q0PY35
Physiology
Stable methylation in a 286bp region of the promoter
Solanum cheesmaniae
(species)
Solanum lycopersicum
tomato - (species) D
LeSPL-CNR
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Lethal Hybrid rescue
Hybrid incompatibility (F1 male lethality)
Coding,
Insertion
Drosophila simulans
(species) D
Interspecific
Linkage Mapping
Brideau NJ; Flores HA; Wang J ; et al. (2006)
Two Dobzhansky-Muller genes interact to cause hybrid lethality in Drosophila.
2 Additional References
GP00000540
Lhr
Q95RV3
Physiology
16a.a. insertion with effect in sensitive background only (Maheshwari and Barbash 2012)
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species) D
Lethal Hybrid rescue
Drosophila simulans
(species)
Published - Accepted by Curator
Lethal Hybrid rescue
Hybrid incompatibility (F1 male lethality)
Coding,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Maheshwari S; Barbash DA (2012)
An indel polymorphism in the hybrid incompatibility gene lethal hybrid rescue of Drosophila is funct[...]
GP00000541
Lhr
Q95RV3
Physiology
Coding divergence in a conserved stretch of 10 C-terminal amino-acids
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Lethal Hybrid rescue
Drosophila simulans
(species)
Published - Accepted by Curator
LEU2
Xenobiotic resistance
Gene Loss,
Complex Change
N
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Perlstein EO; Ruderfer DM; Roberts DC ; et al. (2007)
Genetic basis of individual differences in the response to small-molecule drugs in yeast.
GP00000542
LEU2
P04173
Physiology
Deletion N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
LEU2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
LIGHT AREAS1 (LAR1)
Coloration (flowers)
Cis-regulatory,
Unknown
Erythranthe lewisii
(species)
Interspecific
Linkage Mapping
Yuan YW; Rebocho AB; Sagawa JM ; et al. (2016)
Competition between anthocyanin and flavonol biosynthesis produces spatial pattern variation of flor[...]
GP00000543
LAR1
A0A0S2T0F2
Morphology
unknown
Erythranthe lewisii
(species)
Erythranthe lewisii
(species)
LIGHT AREAS1 (LAR1)
Erythranthe lewisii
(species)
Published - Accepted by Curator
LIMONENE-MYRCENE SYNTHASE (LMS)
Fragrance (floral terpenoid volatiles; D -limonene and beta-myrcene)
Coding,
SNP
N
Erythranthe cardinalis
(species) D
Interspecific
Linkage Mapping
Byers KJ; Vela JP; Peng F ; et al. (2014)
Floral volatile alleles can contribute to pollinator-mediated reproductive isolation in monkeyflower[...]
GP00001761
LMS
W6A2K5
Physiology
G66T transversion mutation in exon 3 of McLMS (KM659024) that results in a nonsense mutation in the McLMS protein (G201X) N
Erythranthe lewisii
(species)
Erythranthe cardinalis
(species) D
LIMONENE-MYRCENE SYNTHASE (LMS)
Erythranthe cardinalis
(species)
Published - Accepted by Curator
Linamarase
Toxicity levels (cyanogenic glucoside)
Gene Loss,
Deletion
N
Trifolium repens
white clover - (species) D
Intraspecific
Linkage Mapping
Olsen KM; Hsu SC; Small LL (2008)
Evidence on the molecular basis of the Ac/ac adaptive cyanogenesis polymorphism in white clover (Tri[...]
1 Additional References
GP00000549
LI
P26205
Physiology
Gene deletion N
Trifolium repens
white clover - (species)
Trifolium repens
white clover - (species) D
Linamarase
Trifolium repens
white clover - (species)
Published - Accepted by Curator
LIPH
Hair length
Coding,
Deletion
N
Oryctolagus cuniculus
rabbit - (species) D
Domesticated
Linkage Mapping
Diribarne M; Mata X; Chantry-Darmon C ; et al. (2011)
A deletion in exon 9 of the LIPH gene is responsible for the rex hair coat phenotype in rabbits (Ory[...]
GP00000550
Liph
Q8CIV3
Morphology
1bp deletion resulting in frameshift N
Oryctolagus cuniculus
rabbit - (species)
Oryctolagus cuniculus
rabbit - (species) D
LIPH
Oryctolagus cuniculus
rabbit - (species)
Published - Accepted by Curator
lncRNA:Hsr omega
Temperature tolerance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
McKechnie SW; Halford MM; McColl G ; et al. (1998)
Both allelic variation and expression of nuclear and cytoplasmic transcripts of Hsr-omega are closel[...]
1 Additional References
GP00001999
Physiology
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
lncRNA:Hsr omega
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Lr21
Pathogen resistance
Coding,
Complex Change
Triticum aestivum
bread wheat - (species)
Domesticated
Linkage Mapping
Huang L; Brooks S; Li W ; et al. (2009)
Evolution of new disease specificity at a simple resistance locus in a crop-weed complex: reconstitu[...]
GP00000551
C5ID17
Physiology
Novel pathogen specificity resulting from chimerism of the parental alleles after intragenic recombination
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
Lr21
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
Lr67
Pathogen resistance (rust ; mildew)
Coding,
SNP
Triticum aestivum
bread wheat - (species) D
Domesticated
Linkage Mapping
Moore JW; Herrera-Foessel S; Lan C ; et al. (2015)
A recently evolved hexose transporter variant confers resistance to multiple pathogens in wheat.
GP00001535
A0A0S1LH45
Physiology
Gly144Arg (exon 2) leads to a protein incapable of glucose import; LR67res exerts a dominant-negative effect through heterodimerization with these functional transporters to reduce glucose uptake.; alterations in hexose transport in infected leaves may explain its ability to reduce the growth of multiple biotrophic pathogen species
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species) D
Lr67
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
Lysine histidine transporter 1
Pathogen resistance
Coding,
Insertion
N
Zea mays
(species) D
Domesticated
Linkage Mapping
Zhao Y; Lu X; Liu C ; et al. (2012)
Identification and fine mapping of rhm1 locus for resistance to Southern corn leaf blight in maize.
GP00000555
LHT1
Q9FKS8
Physiology
354bp insertioin resulting in premature stop codon N
Zea mays
(species)
Zea mays
(species) D
Lysine histidine transporter 1
Zea mays
(species)
Published - Accepted by Curator
M
Pathogen resistance
Coding,
Deletion
Linum usitatissimum
flax - (species) D
Intraspecific
Linkage Mapping
Anderson PA; Lawrence GJ; Morrish BC ; et al. (1997)
Inactivation of the flax rust resistance gene M associated with loss of a repeated unit within the l[...]
GP00000559
P93244
Physiology
426bp deletion, probably by unequal recombination
Linum usitatissimum
flax - (species)
Linum usitatissimum
flax - (species) D
M
Linum usitatissimum
flax - (species)
Published - Accepted by Curator
mab-23
Male genitalia
Coding,
SNP
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Lints R; Emmons SW (2002)
Regulation of sex-specific differentiation and mating behavior in C. elegans by a new member of the [...]
1 Additional References
GP00001323
mab-23
G5ECK3
Morphology
TGC>TTC - cysteine of the DM motif transformed into phenylalanine; so is likely to disrupt DNA-binding function N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
mab-23
Caenorhabditis elegans
(species)
Published - Accepted by Curator
Mac1
Virulence
Unknown,
Unknown
Cryptococcus neoformans
(species)
Intraspecific
Linkage Mapping
Lin X; Huang JC; Mitchell TG ; et al. (2006)
Virulence attributes and hyphal growth of C. neoformans are quantitative traits and the MATalpha all[...]
GP00000560
CGB_D8050W
E6R4R6
Physiology
unknown
Cryptococcus neoformans
(species)
Cryptococcus neoformans
(species)
Mac1
Cryptococcus neoformans
(species)
Published - Accepted by Curator
MADS AFFECTING FLOWERING 2 (MAF2)
Flowering time
Cis-regulatory,
Insertion
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Rosloski SM; Jali SS; Balasubramanian S ; et al. (2010)
Natural diversity in flowering responses of Arabidopsis thaliana caused by variation in a tandem gen[...]
GP00000561
MAF2
Q84J38
Physiology
Insertion alleles - several
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
MADS AFFECTING FLOWERING 2 (MAF2)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
MAM1
Glucosinolate content
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Kroymann J; Textor S; Tokuhisa JG ; et al. (2001)
A gene controlling variation in Arabidopsis glucosinolate composition is part of the methionine chai[...]
3 Additional References
GP00000562
MAM1
Q9FG67
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
MAM1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
MaMyb2
Coloration (flowers)
Cis-regulatory,
Unknown
Diplacus aurantiacus
(species)
Intraspecific
Linkage Mapping
Streisfeld MA; Young WN; Sobel JM (2013)
Divergent selection drives genetic differentiation in an R2R3-MYB transcription factor that contribu[...]
GP00000563
Myb2
M9QXG2
Morphology
unknown expression-phenotype co-vary
Diplacus aurantiacus
(species)
Diplacus aurantiacus
(species)
MaMyb2
Diplacus aurantiacus
(species)
Published - Accepted by Curator
MAP4K4
Xenobiotic resistance (insecticide; Bt Cry1Ac toxin)
Unknown,
Unknown
Plutella xylostella
diamondback moth - (species) D
Intraspecific
Linkage Mapping
Guo Z; Kang S; Chen D ; et al. (2015)
MAPK signaling pathway alters expression of midgut ALP and ABCC genes and causes resistance to Bacil[...]
GP00001673
MAP4K4
O95819
Physiology
MAP4K4 constitutively up-regulated leading to up-regulated PxABCC1 and down-regulated PxABCC2 and PxABCC3 and reduction of membrane-bound ALP (mALP) expression responsible for reduced Cry1Ac toxin binding to midgut proteins
Plutella xylostella
diamondback moth - (species)
Plutella xylostella
diamondback moth - (species) D
MAP4K4
Plutella xylostella
diamondback moth - (species)
Published - Accepted by Curator
MATE1/AltSB/SbMATE
Metal tolerance
Cis-regulatory,
Unknown
Sorghum bicolor
sorghum - (species)
Domesticated
Linkage Mapping
Magalhaes JV; Liu J; Guimarães CT ; et al. (2007)
A gene in the multidrug and toxic compound extrusion (MATE) family confers aluminum tolerance in sor[...]
GP00000565
Physiology
unknown
Sorghum bicolor
sorghum - (species)
Sorghum bicolor
sorghum - (species)
MATE1/AltSB/SbMATE
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
MC1R
Coloration (albinism)
Coding,
Deletion
N
Astyanax mexicanus
Mexican tetra - (species) D
Intraspecific
Linkage Mapping
Gross JB; Borowsky R; Tabin CJ (2009)
A novel role for Mc1r in the parallel evolution of depigmentation in independent populations of the [...]
GP00000567
MC1R
Q01726
Morphology
2bp deletion resulting in frameshift N
Astyanax mexicanus
Mexican tetra - (species)
Astyanax mexicanus
Mexican tetra - (species) D
MC1R
Astyanax mexicanus
Mexican tetra - (species)
Published - Accepted by Curator
MC1R
Coloration (albinism)
Coding,
SNP
Astyanax mexicanus
Mexican tetra - (species) D
Intraspecific
Linkage Mapping
Gross JB; Borowsky R; Tabin CJ (2009)
A novel role for Mc1r in the parallel evolution of depigmentation in independent populations of the [...]
GP00000568
MC1R
Q01726
Morphology
Arg164Cys (position 160 in human; so this mutation resembles the human R160W hypomorphic human mutation)
Astyanax mexicanus
Mexican tetra - (species)
Astyanax mexicanus
Mexican tetra - (species) D
MC1R
Astyanax mexicanus
Mexican tetra - (species)
Published - Accepted by Curator
MC1R
Coloration (coat)
Coding,
SNP
Peromyscus polionotus
oldfield mouse - (species)
Intraspecific
Linkage Mapping
Hoekstra HE; Hirschmann RJ; Bundey RA ; et al. (2006)
A single amino acid mutation contributes to adaptive beach mouse color pattern.
GP00000594
MC1R
Q01726
Morphology
R65C
Peromyscus polionotus
oldfield mouse - (species)
Peromyscus polionotus
oldfield mouse - (species)
MC1R
Peromyscus polionotus
oldfield mouse - (species)
Published - Accepted by Curator
MC1R
Coloration (feathers)
Coding,
SNP
Coturnix japonica
Japanese quail - (species)
Domesticated
Linkage Mapping
Nadeau NJ; Minvielle F; Mundy NI (2006)
Association of a Glu92Lys substitution in MC1R with extended brown in Japanese quail (Coturnix japon[...]
GP00000602
MC1R
Q01726
Morphology
E92K
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species)
MC1R
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
MC1R
Coloration (feathers; eyes)
Coding,
SNP
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Takeuchi S; Suzuki H; Yabuuchi M ; et al. (1996)
A possible involvement of melanocortin 1-receptor in regulating feather color pigmentation in the ch[...]
2 Additional References
GP00000605
MC1R
Q01726
Morphology
E92K; constitutive activation
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
MC1R
Gallus gallus
chicken - (species)
Published - Accepted by Curator
MC1R
Coloration (skin)
Coding,
Insertion
N
Sus scrofa domesticus
domestic pig - (subspecies) D
Domesticated
Linkage Mapping
Kijas JM; Moller M; Plastow G ; et al. (2001)
A frameshift mutation in MC1R and a high frequency of somatic reversions cause black spotting in pig[...]
1 Additional References
GP00000631
MC1R
Q01726
Morphology
2bp insertion at 23 generates early stop @ 56 & D"121"N ? N
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies) D
MC1R
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
MC4R
Feeding behavior
Coding,
SNP
Astyanax mexicanus
Mexican tetra - (species)
Intraspecific
Linkage Mapping
Aspiras AC; Rohner N; Martineau B ; et al. (2015)
Melanocortin 4 receptor mutations contribute to the adaptation of cavefish to nutrient-poor conditio[...]
GP00000637
mc4r
B0V1P1
Behavior
Gly145Ser (candidate mutation)
Astyanax mexicanus
Mexican tetra - (species)
Astyanax mexicanus
Mexican tetra - (species)
MC4R
Astyanax mexicanus
Mexican tetra - (species)
Published - Accepted by Curator
MC4R
Sexual maturation (onset)
Gene Amplification,
Complex Change
Xiphophorus maculatus
southern platyfish - (species)
Intraspecific
Linkage Mapping
Lampert KP; Schmidt C; Fischer P ; et al. (2010)
Determination of onset of sexual maturation and mating behavior by melanocortin receptor 4 polymorph[...]
GP00000638
mc4r
B0V1P1
Physiology
unknown in the species used in crosses but a strong coreelation of gene copy number is found with the phenotype in two closely related species
Xiphophorus maculatus
southern platyfish - (species)
Xiphophorus maculatus
southern platyfish - (species)
MC4R
Xiphophorus maculatus
southern platyfish - (species)
Published - Accepted by Curator
MCO
Metal tolerance (copper)
Gene Amplification,
Insertion
Erythranthe guttata
spotted monkey flower - (species) D
Intraspecific
Linkage Mapping
Wright KM; Lloyd D; Lowry DB ; et al. (2013)
Indirect evolution of hybrid lethality due to linkage with selected locus in Mimulus guttatus.
1 Additional References
GP00001814
LPR2
Q949X9
Physiology
several recent tandem duplications of this gene are responsible for the 12x increase in expression observed in copper tolerant lines - 6X fold enrichment of aligned reads at MCO
Erythranthe guttata
spotted monkey flower - (species)
Erythranthe guttata
spotted monkey flower - (species) D
MCO
Erythranthe guttata
spotted monkey flower - (species)
Published - Accepted by Curator
MdMYB10
Coloration (fruit flesh; foliage)
Cis-regulatory,
Unknown
Malus domestica
apple - (species)
Domesticated
Linkage Mapping
Chagné D; Carlisle CM; Blond C ; et al. (2007)
Mapping a candidate gene (MdMYB10) for red flesh and foliage colour in apple.
1 Additional References
GP00000639
MYB1
A0SQ35
Morphology
unknown
Malus domestica
apple - (species)
Malus domestica
apple - (species)
MdMYB10
Malus domestica
apple - (species)
Published - Accepted by Curator
MdMYB110a
Coloration (fruit flesh)
Cis-regulatory,
Unknown
Malus domestica
apple - (species)
Domesticated
Linkage Mapping
Chagné D; Lin-Wang K; Espley RV ; et al. (2013)
An ancient duplication of apple MYB transcription factors is responsible for novel red fruit-flesh p[...]
GP00000640
K4FA06
Morphology
unknown
Malus domestica
apple - (species)
Malus domestica
apple - (species)
MdMYB110a
Malus domestica
apple - (species)
Published - Accepted by Curator
Melanophilin (MLPH)
Coloration (coat)
Coding,
Deletion
N
Felis catus
domestic cat - (species) D
Domesticated
Linkage Mapping
Ishida Y; David VA; Eizirik E ; et al. (2006)
A homozygous single-base deletion in MLPH causes the dilute coat color phenotype in the domestic cat[...]
GP00000644
Mlph
Q91V27
Morphology
1bp deletion resulting in frameshift c.83delT N
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species) D
Melanophilin (MLPH)
Felis catus
domestic cat - (species)
Published - Accepted by Curator
Melanophilin (MLPH)
Coloration (feathers)
Unknown,
Complex Change
Coturnix japonica
Japanese quail - (species)
Domesticated
Linkage Mapping
Minvielle F; Cecchi T; Passamonti P ; et al. (2009)
Plumage colour mutations and melanins in the feathers of the Japanese quail: a first comparison.
1 Additional References
GP00000650
Mlph
Q91V27
Morphology
Large deletions and rearrangement with pseudogenization of MLPH and loss of two other genes
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species)
Melanophilin (MLPH)
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
Melanophilin (MLPH)
Coloration (coat)
Coding,
SNP
Canis lupus familiaris
dog - (subspecies) D
Domesticated
Linkage Mapping
Drögemüller C; Philipp U; Haase B ; et al. (2007)
A noncoding melanophilin gene (MLPH) SNP at the splice donor of exon 1 represents a candidate causal[...]
GP00002330
Mlph
Q91V27
Morphology
GA substitution at splice donor site causing Splicing defect
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies) D
Melanophilin (MLPH)
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
metal tolerance protein1
Metal tolerance
Gene Amplification,
Complex Change
Arabidopsis halleri
(species) D
Interspecific
Linkage Mapping
Dräger DB; Desbrosses-Fonrouge AG; Krach C ; et al. (2004)
Two genes encoding Arabidopsis halleri MTP1 metal transport proteins co-segregate with zinc toleranc[...]
1 Additional References
GP00000652
MTP1
Q9ZT63
Physiology
Copy number Variant
Arabidopsis lyrata
(species)
Arabidopsis halleri
(species) D
metal tolerance protein1
Arabidopsis halleri
(species)
Published - Accepted by Curator
Mi1.2
Pathogen resistance (parasite)
Unknown,
Unknown
Solanum lycopersicum
tomato - (species)
Intraspecific
Linkage Mapping
Rossi M; Goggin FL; Milligan SB ; et al. (1998)
The nematode resistance gene Mi of tomato confers resistance against the potato aphid.
2 Additional References
GP00000655
Mi-1.2
O81137
Physiology
Not identified
Solanum peruvianum
(species)
Solanum lycopersicum
tomato - (species)
Mi1.2
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Microphtalmia-associated transcription factor
Coloration (coat)
Unknown,
Unknown
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Fontanesi L; Scotti E; Russo V (2012)
Haplotype variability in the bovine MITF gene and association with piebaldism in Holstein and Simmen[...]
2 Additional References
GP00000656
Mitf
Q08874
Morphology
unknown but association with intronic variant
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Microphtalmia-associated transcription factor
Bos taurus
cattle - (species)
Published - Accepted by Curator
Microphtalmia-associated transcription factor
Coloration (feathers)
Cis-regulatory,
Insertion
Anas platyrhynchos
mallard - (species) D
Domesticated
Linkage Mapping
Zhou Z; Li M; Cheng H ; et al. (2018)
An intercross population study reveals genes associated with body size and plumage color in ducks.
GP00002127
Mitf
Q08874
Morphology
6.6kb insertion between exon 1M and exon 2, leads to lower expression of isoform MITF M in pekin white ducks
Anas platyrhynchos
mallard - (species)
Anas platyrhynchos
mallard - (species) D
Microphtalmia-associated transcription factor
Anas platyrhynchos
mallard - (species)
Published - Accepted by Curator
Microphtalmia-associated transcription factor a (MITFA)
Coloration (amelanism)
Cis-regulatory,
Deletion
Betta splendens
Siamese fighting fish - (species) D
Domesticated
Linkage Mapping
Wang L; Sun F; Wan ZY ; et al. (2021)
Genomic Basis of Striking Fin Shapes and Colors in the Fighting Fish.
GP00002379
Q6P0E9NULL
Morphology
"Comparison between homozygous albino and wild-type pigmented fish revealed a cluster of indels and SNPs about 25 kb upstream of mitfa, including a 366-bp deletion in the albino mutant. Genotyping this deletion in ∼1,000 fish revealed that this deletion was strictly correlated with the albino phenotype (supplementary fig. S14 and table S9, Supplementary Material online). These data suggest that the 366-bp deletion is a distant cis-regulatory element and could underlie the albino phenotype."
Betta splendens
Siamese fighting fish - (species)
Betta splendens
Siamese fighting fish - (species) D
Microphtalmia-associated transcription factor a (MITFA)
Betta splendens
Siamese fighting fish - (species)
Published - Accepted by Curator
miR-15a-16
Body size (weight)
Cis-regulatory,
Insertion
N
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Jia X; Lin H; Nie Q ; et al. (2016)
A short insertion mutation disrupts genesis of miR-16 and causes increased body weight in domesticat[...]
GP00002247
Morphology
54-bp insertion introducing splicing site that affect the mature transcript N
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
miR-15a-16
Gallus gallus
chicken - (species)
Published - Accepted by Curator
mir-92a
Trichome pattern (leg)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Arif S; Murat S; Almudi I ; et al. (2013)
Evolution of mir-92a underlies natural morphological variation in Drosophila melanogaster.
GP00000661
Morphology
Not identified
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
mir-92a
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
MITOGEN-ACTIVATED PROTEIN KINASE 12 (MPK12)
Ozone sensitivity (stomata opening and stomatal CO2-sensitivity)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Jakobson L; Vaahtera L; Tõldsepp K ; et al. (2016)
Natural Variation in Arabidopsis Cvi-0 Accession Reveals an Important Role of MPK12 in Guard Cell CO[...]
GP00001383
MPK12
Q8GYQ5
Physiology
G53R
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
MITOGEN-ACTIVATED PROTEIN KINASE 12 (MPK12)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
MKT1
Temperature tolerance
Virulence
Sporulation efficiency
Sporulation efficiency
Xenobiotic resistance (alcohol; ethanol)
Xenobiotic resistance (genotoxic DNA-damage agent)
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Steinmetz LM; Sinha H; Richards DR ; et al. (2002)
Dissecting the architecture of a quantitative trait locus in yeast.
5 Additional References
GP00000666
MKT1
P40850
Physiology
Physiology
Physiology
Physiology
Physiology
Physiology
G30D (functionally verified); or haplotype including G30D (functionally verified)
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
MKT1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Mla (=Sr33/AetRGA1e)
Pathogen resistance
Coding,
Unknown
Aegilops tauschii
(species)
Domesticated
Linkage Mapping
Periyannan S; Moore J; Ayliffe M ; et al. (2013)
The gene Sr33, an ortholog of barley Mla genes, encodes resistance to wheat stem rust race Ug99.
GP00000667
Mla1
Q7EXP5
Physiology
Unknown
Triticum aestivum
bread wheat - (species)
Aegilops tauschii
(species)
Mla (=Sr33/AetRGA1e)
Aegilops tauschii
(species)
Published - Accepted by Curator
Mla1
Pathogen resistance
Coding,
SNP
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Mahadevappa M; Descenzo RA; Wise RP (1994)
Recombination of alleles conferring specific resistance to powdery mildew at the Mla locus in barley[...]
3 Additional References
GP00000668
Mla1
Q7EXP5
Physiology
Coding variation in the LRR domain - exact amino acid change unknown
Hordeum vulgare
(species)
Hordeum vulgare
(species)
Mla1
Hordeum vulgare
(species)
Published - Accepted by Curator
Mla13
Pathogen resistance
Coding,
SNP
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Mahadevappa M; Descenzo RA; Wise RP (1994)
Recombination of alleles conferring specific resistance to powdery mildew at the Mla locus in barley[...]
2 Additional References
GP00000670
Mla1
Q7EXP5
Physiology
Coding variation in the LRR domain - exact amino acid change unknown
Hordeum vulgare
(species)
Hordeum vulgare
(species)
Mla13
Hordeum vulgare
(species)
Published - Accepted by Curator
Mla6
Pathogen resistance
Coding,
SNP
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Mahadevappa M; Descenzo RA; Wise RP (1994)
Recombination of alleles conferring specific resistance to powdery mildew at the Mla locus in barley[...]
2 Additional References
GP00000671
Mla1
Q7EXP5
Physiology
Coding variation in the LRR domain - exact amino acid change(s) unknown
Hordeum vulgare
(species)
Hordeum vulgare
(species)
Mla6
Hordeum vulgare
(species)
Published - Accepted by Curator
MLO
Pathogen resistance
Gene Amplification,
Insertion
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Piffanelli P; Ramsay L; Waugh R ; et al. (2004)
A barley cultivation-associated polymorphism conveys resistance to powdery mildew.
GP00000672
MLO
P93766
Physiology
Tandem array duplication including promoter and partial CDS; resulting in loss-of-function by transcriptional interference
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
MLO
Hordeum vulgare
(species)
Published - Accepted by Curator
MLO1
Pathogen resistance
Coding,
SNP
N
Pisum sativum
pea - (species)
Domesticated
Linkage Mapping
Pavan S; Schiavulli A; Appiano M ; et al. (2011)
Pea powdery mildew er1 resistance is associated to loss-of-function mutations at a MLO homologous lo[...]
GP00000673
MLO
P93766
Physiology
1bp substitution resulting in premature stop codon N
Pisum sativum
pea - (species)
Pisum sativum
pea - (species)
MLO1
Pisum sativum
pea - (species)
Published - Accepted by Curator
MLO1
Pathogen resistance
Coding,
Deletion
N
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Bai Y; Pavan S; Zheng Z ; et al. (2008)
Naturally occurring broad-spectrum powdery mildew resistance in a Central American tomato accession [...]
GP00000674
MLO
P93766
Physiology
19bp deletion resulting in frameshift N
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species) D
MLO1
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
MNR2
Bird head comb
Fertility (sperm motility)
Gene Amplification,
Inversion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Imsland F; Feng C; Boije H ; et al. (2012)
The Rose-comb mutation in chickens constitutes a structural rearrangement causing both altered comb [...]
GP00000675
MNR2
Q9YHY8
Morphology
Physiology
7.4Mb inversion (and secondary structural re-arrangement in some individuals)
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
MNR2
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Molybdenum transporter1 (MOT1)
Metal tolerance
Cis-regulatory,
Deletion
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Baxter I; Muthukumar B; Park HC ; et al. (2008)
Variation in molybdenum content across broadly distributed populations of Arabidopsis thaliana is co[...]
1 Additional References
GP00000676
MOT1
Q9SL95
Physiology
53bp deletion in promoter
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Molybdenum transporter1 (MOT1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Molybdenum transporter1 (MOT1)
Metal tolerance
Coding,
SNP
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Poormohammad Kiani S; Trontin C; Andreatta M ; et al. (2012)
Allelic heterogeneity and trade-off shape natural variation for response to soil micronutrient.
GP00001270
MOT1
Q9SL95
Physiology
D104Y
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
Molybdenum transporter1 (MOT1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
MPK12
Water absorption (water use efficiency)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Des Marais DL; Auchincloss LC; Sukamtoh E ; et al. (2014)
Variation in MPK12 affects water use efficiency in Arabidopsis and reveals a pleiotropic link betwee[...]
GP00001283
MPK12
Q8GYQ5
Physiology
GGT to CGT @position 53
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
MPK12
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
MRS1
F2 lethality
3 Mutations:
Coding
SNP
Saccharomyces cerevisiae
baker's yeast - (species) D
Interspecific
Linkage Mapping
Chou JY; Hung YS; Lin KH ; et al. (2010)
Multiple molecular mechanisms cause reproductive isolation between three yeast species.
GP00000678
MRS1
P07266
Physiology
3 mutations
Saccharomyces paradoxus
(species)
Saccharomyces bayanus
(species)
Saccharomyces kudriavzevii
(species)
Saccharomyces cerevisiae
baker's yeast - (species) D
MRS1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
mucilage-modified 2 (mum2)
Mucilage (seeds)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Domesticated
Linkage Mapping
Macquet A; Ralet MC; Loudet O ; et al. (2007)
A naturally occurring mutation in an Arabidopsis accession affects a beta-D-galactosidase that incre[...]
GP00000681
BGAL6
Q9FFN4
Physiology
44bp deletion in exon 15; from Leu-662 onwards. This deletion causes a frame-shift mutation changing the next 23 amino acids followed by the introduction of a stop codon. N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
mucilage-modified 2 (mum2)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Muscle-specific adenosine monophosphate-activated protein kinase (PRKAG3)
Glycogen content (muscles)
Coding,
SNP
Sus scrofa domesticus
domestic pig - (subspecies) D
Domesticated
Linkage Mapping
Milan D; Jeon JT; Looft C ; et al. (2000)
A mutation in PRKAG3 associated with excess glycogen content in pig skeletal muscle.
GP00000682
Prkag3
Q8BGM7
Physiology
R200Q in CBS1; which is the most conserved region among AMPK g chain isoforms; and R200 is conserved in mammalian and Drosophila AMPK g isoforms
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies) D
Muscle-specific adenosine monophosphate-activated protein kinase (PRKAG3)
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
MYB-FL
Coloration (flower ; UV absorbance)
Cis-regulatory,
Insertion
Petunia axillaris
(species) D
Interspecific
Linkage Mapping
Sheehan H; Moser M; Klahre U ; et al. (2016)
MYB-FL controls gain and loss of floral UV absorbance, a key trait affecting pollinator preference a[...]
GP00001589
MYB-FL
A0A0S3CVD3
Morphology
A 977-kb insertion 12 bp upstream of the predicted TATA-binding box is causing upregulation of the promoter
Petunia integrifolia
(species)
Petunia axillaris
(species) D
MYB-FL
Petunia axillaris
(species)
Published - Accepted by Curator
MYB-FL
Coloration (flower ; UV absorbance)
Coding,
Deletion
N
Petunia exserta
(species) D
Interspecific
Linkage Mapping
Sheehan H; Moser M; Klahre U ; et al. (2016)
MYB-FL controls gain and loss of floral UV absorbance, a key trait affecting pollinator preference a[...]
GP00001590
MYB-FL
A0A0S3CVC7
Morphology
A 1-bp deletion in exon 3 causing a frameshift resulting in a truncated protein N
Petunia axillaris
(species)
Petunia exserta
(species) D
MYB-FL
Petunia exserta
(species)
Published - Accepted by Curator
Myostatin (MSTN = GDF8)
Muscular mass (double muscling)
Coding,
Deletion
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Grobet L; Martin LJ; Poncelet D ; et al. (1997)
A deletion in the bovine myostatin gene causes the double-muscled phenotype in cattle.
2 Additional References
GP00000685
MSTN
O14793
Morphology
nt821 11bp deletion c.821-831delTGAACACTCCA p.Glu275ArgfsX14 N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Myostatin (MSTN = GDF8)
Bos taurus
cattle - (species)
Published - Accepted by Curator
Myostatin (MSTN = GDF8)
Muscular mass (double muscling)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Alexander LJ; Kuehn LA; Smith TP ; et al. (2009)
A Limousin specific myostatin allele affects longissimus muscle area and fatty acid profiles in a Wa[...]
GP00000692
MSTN
O14793
Morphology
c.282C>A p.Phe94Leu
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Myostatin (MSTN = GDF8)
Bos taurus
cattle - (species)
Published - Accepted by Curator
Myostatin (MSTN = GDF8)
Muscular mass (double muscling)
Cis-regulatory,
SNP
Ovis aries
sheep - (species)
Domesticated
Linkage Mapping
Clop A; Marcq F; Takeda H ; et al. (2006)
A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects musc[...]
GP00000695
MSTN
O14793
Morphology
1bp change; generates binding site for two muscle-expressed miRNAs; causing mRNA degradation and lower levels of circulating myostatin
G to A transition in the 3' UTR that creates a target site for mir1 and mir206 microRNAs
Ovis aries
sheep - (species)
Ovis aries
sheep - (species)
Myostatin (MSTN = GDF8)
Ovis aries
sheep - (species)
Published - Accepted by Curator
nAChR
Xenobiotic resistance (insecticide; spinosad)
Coding,
SNP
N
Plutella xylostella
diamondback moth - (species) D
Intraspecific
Linkage Mapping
Baxter SW; Chen M; Dawson A ; et al. (2010)
Mis-spliced transcripts of nicotinic acetylcholine receptor alpha6 are associated with field evolved[...]
GP00002651
CHRNA6
Q15825
Physiology
A mutation within the ninth intron splice junction of Pxalpha6 results in mis-splicing of transcripts and produce a predicted protein truncated between the third and fourth transmembrane domains. N
Plutella xylostella
diamondback moth - (species)
Plutella xylostella
diamondback moth - (species) D
nAChR
Plutella xylostella
diamondback moth - (species)
Published - Accepted by Curator
NAM-B1 (=Gpc-B1)
Grain content
Senescence (grain)
Coding,
Insertion
N
Triticum turgidum
(species) D
Domesticated
Linkage Mapping
Uauy C; Distelfeld A; Fahima T ; et al. (2006)
A NAC Gene regulating senescence improves grain protein, zinc, and iron content in wheat.
GP00000717
NAM-B1
A0SPJ4
Physiology
Physiology
1bp insertion resulting in frameshift N
Triticum turgidum
(species)
Triticum turgidum
(species) D
NAM-B1 (=Gpc-B1)
Triticum turgidum
(species)
Published - Accepted by Curator
nath-10
Fertility (sperm number; egg laying rate)
Coding,
SNP
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Duveau F; Félix MA (2012)
Role of pleiotropy in the evolution of a cryptic developmental variation in Caenorhabditis elegans.
GP00000718
nath-10
O01757
Morphology
Met746Ile (according to Table S2 C>T but it should be G>A - Needs curation)
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
nath-10
Caenorhabditis elegans
(species)
Published - Accepted by Curator
NCED4
Seed dormancy
Unknown,
Unknown
Lactuca sativa
(species) D
Domesticated
Linkage Mapping
Argyris J; Truco MJ; Ochoa O ; et al. (2011)
A gene encoding an abscisic acid biosynthetic enzyme (LsNCED4) collocates with the high temperature [...]
1 Additional References
GP00000737
CCD4
O49675
Physiology
unknown
Lactuca serriola
(species)
Lactuca sativa
(species) D
NCED4
Lactuca sativa
(species)
Published - Accepted by Curator
npr-1
Aggregation behavior
Foraging behavior
CO2 avoidance
Pathogen avoidance
Fertility (competitive fitness)
Coding,
SNP
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
de Bono M; Bargmann CI (1998)
Natural variation in a neuropeptide Y receptor homolog modifies social behavior and food response in[...]
5 Additional References
GP00000739
npr-1
Q18534
Behavior
Behavior
Behavior
Behavior
Behavior; Physiology
Val215Phe (pleiotropic; see other entries)
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
npr-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
Nramp aluminum transporter1
Metal tolerance
2 Mutations:
Coding
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Famoso AN; Zhao K; Clark RT ; et al. (2011)
Genetic architecture of aluminum tolerance in rice (Oryza sativa) determined through genome-wide ass[...]
GP00000740
NRAT1
Q6ZG85
Physiology
2 mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Nramp aluminum transporter1
Oryza sativa
rice - (species)
Published - Accepted by Curator
NRT1.1B
Nitrogen use (metabolism)
Coding,
SNP
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Hu B; Wang W; Ou S ; et al. (2015)
Variation in NRT1.1B contributes to nitrate-use divergence between rice subspecies.
GP00001375
NPF6.3
Q05085
Physiology
c.980C>T p.Met327Thr
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
NRT1.1B
Oryza sativa
rice - (species)
Published - Accepted by Curator
NUDT7
Meat color
Cis-regulatory,
Unknown
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Taniguchi M; Hayashi T; Nii M ; et al. (2010)
Fine mapping of quantitative trait loci for meat color on Sus scrofa chromosome 6: analysis of the s[...]
1 Additional References
GP00000741
Nudt7
Q99P30
Physiology
unknown
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
NUDT7
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Nup160
Hybrid incompatibility (F1 male sterility)
Coding,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Tang S; Presgraves DC (2009)
Evolution of the Drosophila nuclear pore complex results in multiple hybrid incompatibilities.
GP00000742
Nup160
Q9VKJ3
Physiology
Coding divergence
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Nup160
Drosophila simulans
(species)
Published - Accepted by Curator
Nup96
Hybrid incompatibility (F1 male sterility)
Coding,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Presgraves DC; Balagopalan L; Abmayr SM ; et al. (2003)
Adaptive evolution drives divergence of a hybrid inviability gene between two species of Drosophila.
GP00000743
NUP96
Q8LLD0
Physiology
Coding divergence
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Nup96
Drosophila simulans
(species)
Published - Accepted by Curator
nurf-1
Fertility (reproductive timing; egg laying rate)
Lifespan
Growth rate
Diapause (dauer formation)
Coding,
Deletion
Caenorhabditis elegans
(species) D
Domesticated
Linkage Mapping
Large EE; Xu W; Zhao Y ; et al. (2016)
Selection on a Subunit of the NURF Chromatin Remodeler Modifies Life History Traits in a Domesticate[...]
GP00001318
nurf-1
Q6BER5
Physiology
Physiology
Physiology
Physiology
60bp deletion
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
nurf-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
NV10127-NV10128-NV10129 gene cluster
Pheromone production (isomeric/chirality divergence)
Unknown,
Unknown
Nasonia giraulti
(species)
Interspecific
Linkage Mapping
Niehuis O; Buellesbach J; Gibson JD ; et al. (2013)
Behavioural and genetic analyses of Nasonia shed light on the evolution of sex pheromones.
GP00000744
NV10127
L8BRU0
Physiology
Not identified. Gene conversion between the three paralogues in tandem
Nasonia vitripennis
jewel wasp - (species)
Nasonia giraulti
(species)
NV10127-NV10128-NV10129 gene cluster
Nasonia giraulti
(species)
Published - Accepted by Curator
Oca2
Coloration (albinism)
Catecholamine metabolism
Coding,
Deletion
N
Astyanax mexicanus
Mexican tetra - (species) D
Intraspecific
Linkage Mapping
Protas ME; Hersey C; Kochanek D ; et al. (2006)
Genetic analysis of cavefish reveals molecular convergence in the evolution of albinism.
2 Additional References
GP00000745
Oca2
Q62052
Morphology
Physiology
Deletion of exon 21 N
Astyanax mexicanus
Mexican tetra - (species)
Astyanax mexicanus
Mexican tetra - (species) D
Oca2
Astyanax mexicanus
Mexican tetra - (species)
Published - Accepted by Curator
Oca2
Coloration (albinism)
Catecholamine metabolism
Coding,
Deletion
N
Astyanax mexicanus
Mexican tetra - (species) D
Intraspecific
Linkage Mapping
Protas ME; Hersey C; Kochanek D ; et al. (2006)
Genetic analysis of cavefish reveals molecular convergence in the evolution of albinism.
2 Additional References
GP00000746
Oca2
Q62052
Morphology
Physiology
Almost complete deletion of exon 24; + 2 a.a subsitutions at conserved positions - the two point mutations do not drastically affect the function of OCA2 in cell lines suggesting that the exon 24 deletion is the mutation that causes albinism in the Pachón population N
Astyanax mexicanus
Mexican tetra - (species)
Astyanax mexicanus
Mexican tetra - (species) D
Oca2
Astyanax mexicanus
Mexican tetra - (species)
Published - Accepted by Curator
Oca2
Coloration (albinism)
Coding,
Insertion
N
Pantherophis guttatus
(species) D
Intraspecific
Linkage Mapping
Saenko SV; Lamichhaney S; Martinez Barrio A ; et al. (2015)
Amelanism in the corn snake is associated with the insertion of an LTR-retrotransposon in the OCA2 g[...]
GP00001619
OCA2
Q04671
Morphology
insertion of an LTR-retrotransposon (5832-bp) in the 11th intron resulting after splicing in an additional 397-bp fragment constituted of 3 new exons inserted between exons 11 and 12. Generates truncated protein with two stop codons N
Pantherophis guttatus
(species)
Pantherophis guttatus
(species) D
Oca2
Pantherophis guttatus
(species)
Published - Accepted by Curator
ocimene synthase (OS)
Pheromone production (cuticular hydrocarbons ; beta-ocimene)
Coding,
Unknown
Heliconius cydno
(species) D
Interspecific
Linkage Mapping
Darragh K; Orteu A; Black D ; et al. (2021)
A novel terpene synthase controls differences in anti-aphrodisiac pheromone production between close[...]
GP00002426
TPS
A0A7D0AGU9
Physiology
gain of expression - in vitro assay of the protein activity in E. coli - several amino acid changes between the 2 species
Heliconius melpomene
postman butterfly - (species)
Heliconius cydno
(species) D
ocimene synthase (OS)
Heliconius cydno
(species)
Published - Accepted by Curator
OCYMENE SYNTHASE (OS)
Fragrance (floral terpenoid volatiles; E- beta-ocimene)
Coding,
SNP
N
Erythranthe cardinalis
(species) D
Interspecific
Linkage Mapping
Byers KJ; Vela JP; Peng F ; et al. (2014)
Floral volatile alleles can contribute to pollinator-mediated reproductive isolation in monkeyflower[...]
1 Additional References
GP00001760
TPS02
P0CJ43
Physiology
multiple candidate coding sequence differences - together they eliminate the ability of the enzyme to produce E-beta-ocimene - effect of individual mutations not tested N
Erythranthe lewisii
(species)
Erythranthe cardinalis
(species) D
OCYMENE SYNTHASE (OS)
Erythranthe cardinalis
(species)
Published - Accepted by Curator
ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]
Fragrance
Cis-regulatory,
Unknown
Petunia exserta
(species)
Interspecific
Linkage Mapping
Klahre U; Gurba A; Hermann K ; et al. (2011)
Pollinator choice in Petunia depends on two major genetic Loci for floral scent production.
GP00000750
ODO1
Q50EX6
Physiology
Not identified; but probably homologous to P. hybrida Mitchell x R27 promoter variation since these P. hybrida accessions are derived from a P. axillaris x P. integrifolia cross
Petunia axillaris
(species)
Petunia exserta
(species)
ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]
Petunia exserta
(species)
Published - Accepted by Curator
ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]
Fragrance
Cis-regulatory,
SNP
Petunia x hybrida
(species)
Domesticated
Linkage Mapping
Van Moerkercke A; Haring MA; Schuurink RC (2011)
The transcription factor EMISSION OF BENZENOIDS II activates the MYB ODORANT1 promoter at a MYB bind[...]
GP00000751
ODO1
Q50EX6
Physiology
C/T substitution in enhancer region MYB-TF binding site
Petunia x hybrida
(species)
Petunia x hybrida
(species)
ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]
Petunia x hybrida
(species)
Published - Accepted by Curator
Odysseus-site homeobox
Hybrid incompatibility (F1 male sterility)
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Bayes JJ; Malik HS (2009)
Altered heterochromatin binding by a hybrid sterility protein in Drosophila sibling species.
GP00000752
OdsH
Q9VX20
Physiology
Rapid coding divergence
Drosophila mauritiana
(species)
Drosophila simulans
(species)
Odysseus-site homeobox
Drosophila simulans
(species)
Published - Accepted by Curator
opaque2 (O2)
Lysine content (endosperm)
Coding,
Deletion
N
Zea mays
(species) D
Domesticated
Linkage Mapping
Schmidt RJ; Burr FA; Burr B (1987)
Transposon tagging and molecular analysis of the maize regulatory locus opaque-2.
1 Additional References
GP00000753
O2
P12959
Physiology
1bp deletion predicted to cause premature termination of translation N
Zea mays
(species)
Zea mays
(species) D
opaque2 (O2)
Zea mays
(species)
Published - Accepted by Curator
opaque2 (O2)
Lysine content (endosperm)
Cis-regulatory,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Schmidt RJ; Burr FA; Burr B (1987)
Transposon tagging and molecular analysis of the maize regulatory locus opaque-2.
GP00000754
O2
P12959
Physiology
insertion of a non-autonomous rbg transposable element in the untranslated leader sequence of the O2 gene
Zea mays
(species)
Zea mays
(species) D
opaque2 (O2)
Zea mays
(species)
Published - Accepted by Curator
Optix
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius pachinus
(species)
Intraspecific
Linkage Mapping
Reed RD; Papa R; Martin A ; et al. (2011)
optix drives the repeated convergent evolution of butterfly wing pattern mimicry.
1 Additional References
GP00000795
Optix
Q95RW8
Morphology
Not identified
Heliconius cydno
(species)
Heliconius pachinus
(species)
Optix
Heliconius pachinus
(species)
Published - Accepted by Curator
Optix
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius himera
(species)
Intraspecific
Linkage Mapping
Reed RD; Papa R; Martin A ; et al. (2011)
optix drives the repeated convergent evolution of butterfly wing pattern mimicry.
1 Additional References
GP00000796
Optix
Q95RW8
Morphology
Not identified
Heliconius erato
crimson-patched longwing - (species)
Heliconius himera
(species)
Optix
Heliconius himera
(species)
Published - Accepted by Curator
Optix
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius erato
crimson-patched longwing - (species)
Intraspecific
Linkage Mapping
Reed RD; Papa R; Martin A ; et al. (2011)
optix drives the repeated convergent evolution of butterfly wing pattern mimicry.
1 Additional References
GP00000797
Optix
Q95RW8
Morphology
Not identified
Heliconius erato
crimson-patched longwing - (species)
Heliconius erato
crimson-patched longwing - (species)
Optix
Heliconius erato
crimson-patched longwing - (species)
Published - Accepted by Curator
Optix
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius melpomene
postman butterfly - (species)
Intraspecific
Linkage Mapping
Reed RD; Papa R; Martin A ; et al. (2011)
optix drives the repeated convergent evolution of butterfly wing pattern mimicry.
1 Additional References
GP00000798
Optix
Q95RW8
Morphology
Not identified
Heliconius melpomene
postman butterfly - (species)
Heliconius melpomene
postman butterfly - (species)
Optix
Heliconius melpomene
postman butterfly - (species)
Published - Accepted by Curator
ORGANIC CATION TRANSPORTER 1
Root growth (root length response to exogenous cadaverine)
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Strohm AK; Vaughn LM; Masson PH (2015)
Natural variation in the expression of ORGANIC CATION TRANSPORTER 1 affects root length responses to[...]
GP00001279
OCT1
Q9CAT6
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
ORGANIC CATION TRANSPORTER 1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Os07g0603400
Grain size
Grain quality
2 Mutations:
Coding
SNP
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Wang Y; Xiong G; Hu J ; et al. (2015)
Copy number variation at the GL7 locus contributes to grain size diversity in rice.
GP00001542
Os07g0603400
A3BLY4
Morphology
Physiology
2 mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
Os07g0603400
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsC1
Coloration (loss of apiculus color)
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Saitoh K; Onishi K; Mikami I ; et al. (2004)
Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associ[...]
2 Additional References
GP00000805
C
Q76B79
Morphology
10bp deletion N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
OsC1
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsC1
Coloration (loss of apiculus color)
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Saitoh K; Onishi K; Mikami I ; et al. (2004)
Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associ[...]
2 Additional References
GP00000806
C
Q76B79
Morphology
2bp deletion N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
OsC1
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsCKX2=Gn1a
Grain yield
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Ashikari M; Sakakibara H; Lin S ; et al. (2005)
Cytokinin oxidase regulates rice grain production.
GP00000807
CKX2
Q4ADV8
Morphology
11bp deletion causing premature stop codon N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
OsCKX2=Gn1a
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsCKX2=Gn1a
Grain yield
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Ashikari M; Sakakibara H; Lin S ; et al. (2005)
Cytokinin oxidase regulates rice grain production.
GP00000808
CKX2
Q4ADV8
Morphology
Not identified
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
OsCKX2=Gn1a
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsCKX2=Gn1a
Grain yield
Cis-regulatory,
Unknown
Triticum aestivum
bread wheat - (species)
Domesticated
Linkage Mapping
Zhang L; Zhao YL; Gao LF ; et al. (2012)
TaCKX6-D1, the ortholog of rice OsCKX2, is associated with grain weight in hexaploid wheat.
GP00000809
CKX2
Q4ADV8
Morphology
unknown
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
OsCKX2=Gn1a
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
OsGA20ox1
Seedling vigor
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Abe A; Takagi H; Fujibe T ; et al. (2012)
OsGA20ox1, a candidate gene for a major QTL controlling seedling vigor in rice.
GP00000810
GA20OX1
P93771
Physiology
unknown ; no coding variation
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
OsGA20ox1
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsLG1
Seed shattering (panicle shape)
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Ishii T; Numaguchi K; Miura K ; et al. (2013)
OsLG1 regulates a closed panicle trait in domesticated rice.
GP00000811
SPL8
Q7XPY1
Morphology
unknown but fine-mapped 9.3kb region
Oryza rufipogon
(species)
Oryza sativa
rice - (species)
OsLG1
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsPPKL1/qGL3
Grain size
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Zhang X; Wang J; Huang J ; et al. (2012)
Rare allele of OsPPKL1 associated with grain length causes extra-large grain and a significant yield[...]
GP00000812
qLTG-3-1
B3IWI0
Morphology
Asp364Glu
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
OsPPKL1/qGL3
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsSPL14 / WFP
Grain yield
Cis-regulatory,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Jiao Y; Wang Y; Xue D ; et al. (2010)
Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice.
1 Additional References
GP00000813
IPA1
D8WJ58
Morphology
Point mutation resulting in altered binding of a micro-RNA
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
OsSPL14 / WFP
Oryza sativa
rice - (species)
Published - Accepted by Curator
OsSPL16
Grain size
Grain shape
Cis-regulatory,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Wang S; Wu K; Yuan Q ; et al. (2012)
Control of grain size, shape and quality by OsSPL16 in rice.
1 Additional References
GP00000814
SPL16
L0AP48
Morphology
Morphology
Promoter variation
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
OsSPL16
Oryza sativa
rice - (species)
Published - Accepted by Curator
OVATE
Fruit shape
Coding,
SNP
N
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Liu J; Van Eck J; Cong B ; et al. (2002)
A new class of regulatory genes underlying the cause of pear-shaped tomato fruit.
GP00000815
Q8GSM4
Morphology
V164* caused by G>T; which leads to a 75-aa truncation in the C terminus of the predicted protein N
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species)
OVATE
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Overdrive
Hybrid incompatibility (male F1 sterility)
Coding,
SNP
Drosophila pseudoobscura
(species)
Intraspecific
Linkage Mapping
Phadnis N; Orr HA (2009)
A single gene causes both male sterility and segregation distortion in Drosophila hybrids.
GP00000816
Ovd
Q2LZF7
Physiology
6 candidate non-synonymous changes - the effect of single amino acid changes has not been tested
Drosophila pseudoobscura
(species)
Drosophila pseudoobscura
(species)
Overdrive
Drosophila pseudoobscura
(species)
Published - Accepted by Curator
PAP1
Coloration (anthocyanin accumulation under high-light and low-temperature stress)
Gene Loss,
Deletion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ilk N; Ding J; Ihnatowicz A ; et al. (2015)
Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...]
1 Additional References
GP00001232
MYB75
Q9FE25
Physiology
several deletions in the promoter; first intron; second exon and 3' UTR region (putative loss of function) N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
PAP1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
PAP2
Coloration (anthocyanin accumulation under high-light and low-temperature stress)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ilk N; Ding J; Ihnatowicz A ; et al. (2015)
Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...]
GP00001231
MYB90
Q9ZTC3
Physiology
one SNP in the coding region and several in the putative promoter region
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
PAP2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Anopheles gambiae
African malaria mosquito - (species) D
Intraspecific
Linkage Mapping
Ranson H; Jensen B; Vulule JM ; et al. (2000)
Identification of a point mutation in the voltage-gated sodium channel gene of Kenyan Anopheles gamb[...]
GP00000818
para
P35500
Physiology
L1014S
Anopheles gambiae
African malaria mosquito - (species)
Anopheles gambiae
African malaria mosquito - (species) D
para (kdr)
Anopheles gambiae
African malaria mosquito - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Heliothis virescens
tobacco budworm - (species) D
Intraspecific
Linkage Mapping
Zhao Y; Park Y; Adams ME (2000)
Functional and evolutionary consequences of pyrethroid resistance mutations in S6 transmembrane segm[...]
3 Additional References
GP00000834
para
P35500
Physiology
V421M (=V410M)
Heliothis virescens
tobacco budworm - (species)
Heliothis virescens
tobacco budworm - (species) D
para (kdr)
Heliothis virescens
tobacco budworm - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Helicoverpa zea
corn earworm - (species) D
Intraspecific
Linkage Mapping
Hopkins BW; Pietrantonio PV (2010)
The Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae) voltage-gated sodium channel and mutations ass[...]
GP00000835
para
P35500
Physiology
V421M (=V410M)
Helicoverpa zea
corn earworm - (species)
Helicoverpa zea
corn earworm - (species) D
para (kdr)
Helicoverpa zea
corn earworm - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Helicoverpa zea
corn earworm - (species) D
Intraspecific
Linkage Mapping
Hopkins BW; Pietrantonio PV (2010)
The Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae) voltage-gated sodium channel and mutations ass[...]
GP00000836
para
P35500
Physiology
L1029H (= L1014H)
Helicoverpa zea
corn earworm - (species)
Helicoverpa zea
corn earworm - (species) D
para (kdr)
Helicoverpa zea
corn earworm - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Helicoverpa zea
corn earworm - (species) D
Intraspecific
Linkage Mapping
Hopkins BW; Pietrantonio PV (2010)
The Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae) voltage-gated sodium channel and mutations ass[...]
GP00000837
para
P35500
Physiology
V421A (=V410A)
Helicoverpa zea
corn earworm - (species)
Helicoverpa zea
corn earworm - (species) D
para (kdr)
Helicoverpa zea
corn earworm - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Helicoverpa zea
corn earworm - (species) D
Intraspecific
Linkage Mapping
Hopkins BW; Pietrantonio PV (2010)
The Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae) voltage-gated sodium channel and mutations ass[...]
GP00000838
para
P35500
Physiology
V421G (=V410G)
Helicoverpa zea
corn earworm - (species)
Helicoverpa zea
corn earworm - (species) D
para (kdr)
Helicoverpa zea
corn earworm - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Musca domestica
house fly - (species) D
Intraspecific
Linkage Mapping
Miyazaki M; Ohyama K; Dunlap DY ; et al. (1996)
Cloning and sequencing of the para-type sodium channel gene from susceptible and kdr-resistant Germa[...]
2 Additional References
GP00000842
para
P35500
Physiology
L1014F
Musca domestica
house fly - (species)
Musca domestica
house fly - (species) D
para (kdr)
Musca domestica
house fly - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Musca domestica
house fly - (species) D
Intraspecific
Linkage Mapping
Miyazaki M; Ohyama K; Dunlap DY ; et al. (1996)
Cloning and sequencing of the para-type sodium channel gene from susceptible and kdr-resistant Germa[...]
3 Additional References
GP00000843
para
P35500
Physiology
M918T
Musca domestica
house fly - (species)
Musca domestica
house fly - (species) D
para (kdr)
Musca domestica
house fly - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Myzus persicae
green peach aphid - (species) D
Intraspecific
Linkage Mapping
Martinez-Torres D; Foster SP; Field LM ; et al. (1999)
A sodium channel point mutation is associated with resistance to DDT and pyrethroid insecticides in [...]
GP00000844
para
P35500
Physiology
L1014F
Myzus persicae
green peach aphid - (species)
Myzus persicae
green peach aphid - (species) D
para (kdr)
Myzus persicae
green peach aphid - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
3 Mutations:
Coding
SNP
Pediculus humanus
human louse - (species) D
Intraspecific
Candidate Gene
Hodgdon HE; Yoon KS; Previte DJ ; et al. (2010)
Determination of knockdown resistance allele frequencies in global human head louse populations usin[...]
3 Additional References
GP00000846
para
P35500
Physiology
3 mutations
Pediculus humanus
human louse - (species)
Pediculus humanus
human louse - (species) D
para (kdr)
Pediculus humanus
human louse - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Pediculus humanus
human louse - (species) D
Intraspecific
Linkage Mapping
Lee Si Hyeock; Yoon Kyong-Sup; Williamson Martin S ; et al. (2000
)
Molecular analysis of kdr-like resistance in permethrin-resistant strains of head lice, Pediculus ca[...]
GP00000847
para
P35500
Physiology
L932F
Pediculus humanus
human louse - (species)
Pediculus humanus
human louse - (species) D
para (kdr)
Pediculus humanus
human louse - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Plutella xylostella
diamondback moth - (species)
Intraspecific
Linkage Mapping
Usherwood PN; Davies TG; Mellor IR ; et al. (2007)
Mutations in DIIS5 and the DIIS4-S5 linker of Drosophila melanogaster sodium channel define binding [...]
GP00000849
para
P35500
Physiology
T929I
Plutella xylostella
diamondback moth - (species)
Plutella xylostella
diamondback moth - (species)
para (kdr)
Plutella xylostella
diamondback moth - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Tetranychus evansi
red spider mite - (species) D
Intraspecific
Linkage Mapping
Nyoni BN; Gorman K; Mzilahowa T ; et al. (2011)
Pyrethroid resistance in the tomato red spider mite, Tetranychus evansi, is associated with mutation[...]
GP00002493
para
P35500
Physiology
M918T - first report of the M918T mutation in the absence of L1014F in any arthropod species.
Tetranychus evansi
red spider mite - (species)
Tetranychus evansi
red spider mite - (species) D
para (kdr)
Tetranychus evansi
red spider mite - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Plutella xylostella
diamondback moth - (species)
Intraspecific
Linkage Mapping
Endersby NM; Viduka K; Baxter SW ; et al. (2011)
Widespread pyrethroid resistance in Australian diamondback moth, Plutella xylostella (L.), is relate[...]
1 Additional References
GP00002510
para
P35500
Physiology
F1020S
Plutella xylostella
diamondback moth - (species)
Plutella xylostella
diamondback moth - (species)
para (kdr)
Plutella xylostella
diamondback moth - (species)
Published - Accepted by Curator
para (kdr)
Xenobiotic resistance (insecticide)
Coding,
SNP
Helicoverpa zea
corn earworm - (species) D
Intraspecific
Linkage Mapping
Hopkins BW; Pietrantonio PV (2010)
The Helicoverpa zea (Boddie) (Lepidoptera: Noctuidae) voltage-gated sodium channel and mutations ass[...]
1 Additional References
GP00002517
para
P35500
Physiology
I951V = I936V
Helicoverpa zea
corn earworm - (species)
Helicoverpa zea
corn earworm - (species) D
para (kdr)
Helicoverpa zea
corn earworm - (species)
Published - Accepted by Curator
Patched1 (Ptc1)
Cranio-facial morphology
Cis-regulatory,
Unknown
Maylandia mbenjii
(species) D
Interspecific
Linkage Mapping
Roberts RB; Hu Y; Albertson RC ; et al. (2011)
Craniofacial divergence and ongoing adaptation via the hedgehog pathway.
1 Additional References
GP00000856
ptch1
Q98864
Morphology
Uncharacterized cis-regulatory change - with ancestral Labeotropheus (LF) allele exhibiting relatively higher levels of expression
Labeotropheus fuelleborni
blue mbuna - (species)
Maylandia mbenjii
(species) D
Patched1 (Ptc1)
Maylandia mbenjii
(species)
Published - Accepted by Curator
Pax3
Coloration (white-spotting ; leucism)
Coding,
SNP
Equus caballus
horse - (species) D
Domesticated
Linkage Mapping
Hauswirth R; Haase B; Blatter M ; et al. (2012)
Mutations in MITF and PAX3 cause "splashed white" and other white spotting phenotypes in horses.
GP00002252
PAX3
P23760
Morphology
c.209G>A p.C70Y
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
Pax3
Equus caballus
horse - (species)
Published - Accepted by Curator
pax3a
Coloration (scales)
Cis-regulatory,
SNP
Tropheops sp. 'red cheek'
(species)
Interspecific
Linkage Mapping
Albertson RC; Powder KE; Hu Y ; et al. (2014)
Genetic basis of continuous variation in the levels and modular inheritance of pigmentation in cichl[...]
GP00001417
pax3a
Q6DHA7
Morphology
C>T SNP within 5UTR
Labeotropheus fuelleborni
blue mbuna - (species)
Tropheops sp. 'red cheek'
(species)
pax3a
Tropheops sp. 'red cheek'
(species)
Published - Accepted by Curator
pax3b
Coloration (scales)
Unknown,
Unknown
Tropheops sp. 'red cheek'
(species)
Interspecific
Linkage Mapping
Albertson RC; Powder KE; Hu Y ; et al. (2014)
Genetic basis of continuous variation in the levels and modular inheritance of pigmentation in cichl[...]
GP00001419
pax3-b
Q0IH87
Morphology
unknown
Labeotropheus fuelleborni
blue mbuna - (species)
Tropheops sp. 'red cheek'
(species)
pax3b
Tropheops sp. 'red cheek'
(species)
Published - Accepted by Curator
Pax7
Coloration (scales)
Cis-regulatory,
Unknown
Maylandia zebra
zebra mbuna - (species)
Interspecific
Linkage Mapping
Roberts RB; Ser JR; Kocher TD (2009)
Sexual conflict resolved by invasion of a novel sex determiner in Lake Malawi cichlid fishes.
GP00000857
Pax7
P47239
Morphology
Not identified
Labeotropheus fuelleborni
blue mbuna - (species)
Maylandia zebra
zebra mbuna - (species)
Pax7
Maylandia zebra
zebra mbuna - (species)
Published - Accepted by Curator
pdm3
Coloration (female abdomen)
Cis-regulatory,
Complex Change
Drosophila serrata
(species) D
Intraspecific
Linkage Mapping
Yassin A; Delaney EK; Reddiex AJ ; et al. (2016)
The pdm3 Locus Is a Hotspot for Recurrent Evolution of Female-Limited Color Dimorphism in Drosophila[...]
GP00001400
pdm3
A0A0B4LEG2
Morphology
1st intron variant divergent in length and sequence. Dark haplotype contains four tandem sets of three motifs.
Drosophila serrata
(species)
Drosophila serrata
(species) D
pdm3
Drosophila serrata
(species)
Published - Accepted by Curator
pdm3
Coloration (female abdomen)
Cis-regulatory,
Unknown
Drosophila kikkawai
(species)
Intraspecific
Linkage Mapping
Yassin A; Delaney EK; Reddiex AJ ; et al. (2016)
The pdm3 Locus Is a Hotspot for Recurrent Evolution of Female-Limited Color Dimorphism in Drosophila[...]
GP00001401
pdm3
A0A0B4LEG2
Morphology
associated SNPs occur in the intergenic upstream region except one in the second intron
Drosophila kikkawai
(species)
Drosophila kikkawai
(species)
pdm3
Drosophila kikkawai
(species)
Published - Accepted by Curator
pdm3
Coloration (female abdomen)
Unknown,
Unknown
Drosophila burlai
(species)
Intraspecific
Linkage Mapping
Yassin A; Delaney EK; Reddiex AJ ; et al. (2016)
The pdm3 Locus Is a Hotspot for Recurrent Evolution of Female-Limited Color Dimorphism in Drosophila[...]
GP00001402
pdm3
A0A0B4LEG2
Morphology
unknown
Drosophila burlai
(species)
Drosophila burlai
(species)
pdm3
Drosophila burlai
(species)
Published - Accepted by Curator
pdm3
Coloration (abdomen; male)
Cis-regulatory,
Unknown
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Liu Y; Ramos-Womack M; Han C ; et al. (2019)
Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution.
GP00002022
pdm3
A0A0B4LEG2
Morphology
change in a cis-regulatory region - exact causing mutation(s) unknown - increased pdm3 abdominal expression associated with lighter color
Drosophila yakuba
(species)
Drosophila santomea
(species) D
pdm3
Drosophila santomea
(species)
Published - Accepted by Curator
PDSS2
Feather
Cis-regulatory,
SNP
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Feng C; Gao Y; Dorshorst B ; et al. (2014)
A cis-regulatory mutation of PDSS2 causes silky-feather in chickens.
GP00002254
Q86YH6NULL
Morphology
Only variant explaining homozygous phenotype is c.-103C>G and shown to reduce PDSS2 promoter activity in vitro
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
PDSS2
Gallus gallus
chicken - (species)
Published - Accepted by Curator
peel-1
Hybrid incompatibility
Coding,
Deletion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Seidel HS; Ailion M; Li J ; et al. (2011)
A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion i[...]
1 Additional References
GP00001321
peel-1
G5EGC6
Physiology
1bp deletion creating a frameshift starting at amino acid position 43. Total length of wild-type protein is 174 amino acids. N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
peel-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
peel-1
Hybrid incompatibility
Coding,
SNP
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Seidel HS; Ailion M; Li J ; et al. (2011)
A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion i[...]
1 Additional References
GP00001322
peel-1
G5EGC6
Physiology
G>T - glycine to stop codon at position 57. Total length of wild-type protein is 174 amino acids. N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
peel-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
peel-1/zeel-1
Hybrid incompatibility
Gene Loss,
Deletion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Seidel HS; Rockman MV; Kruglyak L (2008)
Widespread genetic incompatibility in C. elegans maintained by balancing selection.
1 Additional References
GP00001320
peel-1
G5EGC6
Physiology
19kb deletion N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
peel-1/zeel-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
PER36
Mucilage (seeds)
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Macquet A; Ralet MC; Loudet O ; et al. (2007)
A naturally occurring mutation in an Arabidopsis accession affects a beta-D-galactosidase that incre[...]
1 Additional References
GP00001273
PER36
Q9SD46
Physiology
Tyrosine @position 262bp to a stop codon N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
PER36
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
pericarp color1 (P1)
Coloration (seed)
Cis-regulatory,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Lechelt C; Peterson T; Laird A ; et al. (1989)
Isolation and molecular analysis of the maize P locus.
GP00000859
P1
O24579
Morphology
insertion of transposable element Ac within a large intron; affecting transcripts. The five transcripts found in P-RR plants are absent in P-VV. A chimeric transcript containing part of Ac sequence is found.
Zea mays
(species)
Zea mays
(species) D
pericarp color1 (P1)
Zea mays
(species)
Published - Accepted by Curator
Period (per)
Courtship song
Coding,
SNP
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Wheeler DA; Kyriacou CP; Greenacre ML ; et al. (1991)
Molecular transfer of a species-specific behavior from Drosophila simulans to Drosophila melanogaste[...]
3 Additional References
GP00000860
per
P07663
Behavior
A121T and/or K125R and/or E165D and /or V224A
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Period (per)
Drosophila simulans
(species)
Published - Accepted by Curator
PH4/GmMYB-G20-1
Coloration (flowers)
Coding,
SNP
N
Glycine max
soybean - (species)
Domesticated
Linkage Mapping
Takahashi R; Benitez ER; Oyoo ME ; et al. (2011 Jul-Aug)
Nonsense mutation of an MYB transcription factor is associated with purple-blue flower color in soyb[...]
GP00000862
PH4
Q2TCH0
Morphology
Substitution creating premature Stop (codon 158) N
Glycine max
soybean - (species)
Glycine max
soybean - (species)
PH4/GmMYB-G20-1
Glycine max
soybean - (species)
Published - Accepted by Curator
PHO84
Xenobiotic resistance
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Perlstein EO; Ruderfer DM; Roberts DC ; et al. (2007)
Genetic basis of individual differences in the response to small-molecule drugs in yeast.
GP00000865
PHO84
P25297
Physiology
L259P
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
PHO84
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
phytochrome A-associated F-box protein
Circadian rhythm (phase)
Coding,
Deletion
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Müller NA; Wijnen CL; Srinivasan A ; et al. (2016)
Domestication selected for deceleration of the circadian clock in cultivated tomato.
GP00001287
101247753
K4CV85
Physiology
3bp deletion in CDS causing a 'K (lysine) loss in the highly conserved C terminus of EID1
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species) D
phytochrome A-associated F-box protein
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
phytochrome B (PHYB)
Light sensitivity
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Filiault DL; Wessinger CA; Dinneny JR ; et al. (2008)
Amino acid polymorphisms in Arabidopsis phytochrome B cause differential responses to light.
GP00000871
PHYB
P14713
Physiology
I143L
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
phytochrome B (PHYB)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
phytochrome B (PHYB)
Light sensitivity
Coding,
Deletion
Sorghum bicolor
sorghum - (species) D
Domesticated
Linkage Mapping
Childs KL; Miller FR; Cordonnier-Pratt MM ; et al. (1997)
The sorghum photoperiod sensitivity gene, Ma3, encodes a phytochrome B.
GP00000872
PHYB
P14713
Physiology
1bp deletion 30bp upstream of the stop codon
Sorghum bicolor
sorghum - (species)
Sorghum bicolor
sorghum - (species) D
phytochrome B (PHYB)
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
phytochrome C (PHYC)
Light sensitivity
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Balasubramanian S; Sureshkumar S; Agrawal M ; et al. (2006)
The PHYTOCHROME C photoreceptor gene mediates natural variation in flowering and growth responses of[...]
GP00000873
PHYC
P14714
Physiology
K299*; the predicted Fr-2 PHYC protein therefore lacks half of the GAF domain; and the entire PHY; PAS and histidine kinase domains; all of which are typically required for phytochrome function N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
phytochrome C (PHYC)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
phytoene synthase
Carotenoid content (seed)
Unknown,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Palaisa KA; Morgante M; Williams M ; et al. (2003)
Contrasting effects of selection on sequence diversity and linkage disequilibrium at two phytoene sy[...]
1 Additional References
GP00000875
PSY1
P49085
Physiology
Not identified
Zea mays
(species)
Zea mays
(species)
phytoene synthase
Zea mays
(species)
Published - Accepted by Curator
phytoene synthase
Carotenoid content (fruit)
Coding,
Insertion
N
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Fray RG; Grierson D (1993)
Identification and genetic analysis of normal and mutant phytoene synthase genes of tomato by sequen[...]
1 Additional References
GP00001718
PSY1
P49085
Physiology
insertion of a Rider transposable element within the coding region N
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species) D
phytoene synthase
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
phytoene synthase
Carotenoid content (fruit)
Coding,
Indel
N
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Fray RG; Grierson D (1993)
Identification and genetic analysis of normal and mutant phytoene synthase genes of tomato by sequen[...]
1 Additional References
GP00001719
PSY1
P49085
Physiology
r y cDNA was found to be mutated at its 3' end, lacking the last 237 bases of PSY1 coding sequence and containing 185 nucleotides of an unrelated sequence in its place N
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species) D
phytoene synthase
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Pi-ta
Pathogen resistance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Bryan GT; Wu KS; Farrall L ; et al. (2000)
tA single amino acid difference distinguishes resistant and susceptible alleles of the rice blast re[...]
2 Additional References
GP00000876
Pi-ta
C9E6G5
Physiology
Ala918Ser
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pi-ta
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pi2 (Nbs4-Pi2)
Pathogen resistance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Zhou B; Qu S; Liu G ; et al. (2006)
The eight amino-acid differences within three leucine-rich repeats between Pi2 and Piz-t resistance [...]
GP00000877
PI2
M1EC06
Physiology
eight amino acid changes - exact causing change(s) unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pi2 (Nbs4-Pi2)
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pi36
Pathogen resistance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Liu X; Lin F; Wang L ; et al. (2007)
The in silico map-based cloning of Pi36, a rice coiled-coil nucleotide-binding site leucine-rich rep[...]
GP00000878
Pi36
D5J6W0
Physiology
Asp590Ser
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pi36
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pi37
Pathogen resistance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Lin F; Chen S; Que Z ; et al. (2007)
The blast resistance gene Pi37 encodes a nucleotide binding site leucine-rich repeat protein and is [...]
GP00000879
Pi37
Q06AJ9
Physiology
V239A and I247M are the only amino acid substitutions found in all tested resistant strains- the effect of each individual amino acid change has not been tested
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pi37
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pi5-1 + Pi5-2 cluster
Pathogen resistance
Coding,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Lee SK; Song MY; Seo YS ; et al. (2009)
Rice Pi5-mediated resistance to Magnaporthe oryzae requires the presence of two coiled-coil-nucleoti[...]
GP00000880
Pi5-1
C3SBK3
Physiology
In genetic transformation experiments of a susceptible rice cultivar neither the Pi5-1 nor the Pi5-2 gene was found to confer resistance to M. oryzae. In contrast transgenic rice plants expressing both of these genes (generated by crossing transgenic lines carrying each gene individually) conferred Pi5-mediated resistance to M. oryzae
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pi5-1 + Pi5-2 cluster
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pi9 (= Nbs2-Pi9)
Pathogen resistance
Coding,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Qu S; Liu G; Zhou B ; et al. (2006)
The broad-spectrum blast resistance gene Pi9 encodes a nucleotide-binding site-leucine-rich repeat p[...]
GP00000881
Pi9
Q1WGB0
Physiology
Coding variation; necessary for resistance in completementation assay
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pi9 (= Nbs2-Pi9)
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pib
Pathogen resistance
Unknown,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Wang ZX; Yano M; Yamanouchi U ; et al. (1999)
The Pib gene for rice blast resistance belongs to the nucleotide binding and leucine-rich repeat cla[...]
GP00000882
Pi-b
Q9SSY0
Physiology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pib
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pid3
Pathogen resistance
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Chen J; Shi Y; Liu W ; et al. (2011)
A Pid3 allele from rice cultivar Gumei2 confers resistance to Magnaporthe oryzae.
GP00000883
Pid3
C0LMX9
Physiology
1bp deletion resulting in truncated protein N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
Pid3
Oryza sativa
rice - (species)
Published - Accepted by Curator
PigmR
Pathogen resistance (plant fungus pathogen)
Unknown,
Unknown
Oryza sativa
rice - (species)
Intraspecific
Linkage Mapping
Deng Y; Zhai K; Xie Z ; et al. (2017)
Epigenetic regulation of antagonistic receptors confers rice blast resistance with yield balance.
GP00001592
Pigm_GM4.7
A0A1P8CYR1
Physiology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
PigmR
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pikm1-TS + Pikm2-TS cluster
Pathogen resistance
Coding,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Ashikawa I; Hayashi N; Yamane H ; et al. (2008)
Two adjacent nucleotide-binding site-leucine-rich repeat class genes are required to confer Pikm-spe[...]
1 Additional References
GP00000884
PIKM1-TS
B5UBC1
Physiology
Coding variation in both genes; with alleles of both genes necessary for resistance in completementation assays
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Pikm1-TS + Pikm2-TS cluster
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pit
Pathogen resistance (rice blast disease; fungal pathogen; Magnaporthe grisea)
Cis-regulatory,
Insertion
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Hayashi K; Yoshida H (2009)
Refunctionalization of the ancient rice blast disease resistance gene Pit by the recruitment of a re[...]
GP00002052
Pit
B9A1G4
Physiology
insertion of a 5.5-kb LTR retrotransposon Renovator upstream of the gene (256‐bp upstream of the predicted start codon for NBSt2K59; in the same orientation as the gene)
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
Pit
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pitx1
Limb Identity (feathered feet)
Cis-regulatory,
Deletion
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Kronenberg Z; Infante CR ; et al. (2016)
Molecular shifts in limb identity underlie development of feathered feet in two domestic avian speci[...]
GP00000885
PITX1
P56673
Morphology
44kb deletion
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
Pitx1
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000886
Pitx1
P70314
Morphology
488bp promoter region : deletion 1 ; 5 kb deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000887
Pitx1
P70314
Morphology
488bp promoter region : deletion 2 ; 757bp deletion present in the pelvic-reduced BEPA population from Alaska
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000888
Pitx1
P70314
Morphology
488bp promoter region : deletion 3 ; 3.5 kb deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000889
Pitx1
P70314
Morphology
488bp promoter region : deletion 4 ; 757 bp deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000890
Pitx1
P70314
Morphology
488bp promoter region : deletion 5 ; 2 kb deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000891
Pitx1
P70314
Morphology
488bp promoter region : deletion 6 ; 973bp deletion present in the Hump Lake AK pelvic-reduced population (HUMP)
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000892
Pitx1
P70314
Morphology
488bp promoter region : deletion 7 ; 1868bp deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000893
Pitx1
P70314
Morphology
488bp promoter region : deletion 8 ; 8 kb deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
pitx1
Pelvis morphology (loss of ventral spines)
Cis-regulatory,
Deletion
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Linkage Mapping
Shapiro MD; Marks ME; Peichel CL ; et al. (2004)
Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks.
1 Additional References
GP00000894
Pitx1
P70314
Morphology
488bp promoter region : deletion 9 ; 8 kb deletion
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
pitx1
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
Piz-t
Pathogen resistance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Zhou B; Qu S; Liu G ; et al. (2006)
The eight amino-acid differences within three leucine-rich repeats between Pi2 and Piz-t resistance [...]
GP00000895
Piz-t
Q0H213
Physiology
Coding variation in the LRR domain
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Piz-t
Oryza sativa
rice - (species)
Published - Accepted by Curator
Pl6
Pathogen resistance
Coding,
Unknown
Helianthus annuus
common sunflower - (species) D
Domesticated
Linkage Mapping
Franchel J; Bouzidi MF; Bronner G ; et al. (2013)
Positional cloning of a candidate gene for resistance to the sunflower downy mildew, Plasmopara hals[...]
GP00000896
F8R6K4
Physiology
unknown ; cluster of several R-protein coding genes; of which only one is expressed
Helianthus annuus
common sunflower - (species)
Helianthus annuus
common sunflower - (species) D
Pl6
Helianthus annuus
common sunflower - (species)
Published - Accepted by Curator
PLAG1
Body size (height; weight)
Cis-regulatory,
Insertion
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Karim L; Takeda H; Lin L ; et al. (2011)
Variants modulating the expression of a chromosome domain encompassing PLAG1 influence bovine statur[...]
GP00001569
PLAG1
E1BEA5
Morphology
a (CCG)n trinucleotide repeat with 9> 11 copies and a SNP A>G immediately upstream of PLAG1 transcriptional start site
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
PLAG1
Bos taurus
cattle - (species)
Published - Accepted by Curator
plep-1
Male-male copulatory behavior
Coding,
SNP
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Noble LM; Chang AS; McNelis D ; et al. (2015)
Natural Variation in plep-1 Causes Male-Male Copulatory Behavior in C. elegans.
GP00000897
plep-1
A0A0K3AR66
Behavior
V278D
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
plep-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
plg-1
Copulatory plug
Coding,
Insertion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Palopoli MF; Rockman MV; TinMaung A ; et al. (2008)
Molecular basis of the copulatory plug polymorphism in Caenorhabditis elegans.
GP00000898
Physiology
insertion of transposable element in an exon N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
plg-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
Pm3
Pathogen resistance
Coding,
SNP
Triticum aestivum
bread wheat - (species)
Intraspecific
Linkage Mapping
Yahiaoui N; Kaur N; Keller B (2009)
Independent evolution of functional Pm3 resistance genes in wild tetraploid wheat and domesticated b[...]
1 Additional References
GP00000899
PM3
C1K3M2
Physiology
Various substitution haplotypes - exact causing amino acid change(s) unknown - in hexaploid bread wheat one amino acid change in a solvent‐exposed residue of LRR27 (E1334 to V1334) was sufficient to convert the susceptible Pm3CS into a functional resistance allele (Yahiaoui et al., 2006).
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
Pm3
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
PMEI6
Mucilage (seeds)
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Saez-Aguayo S; Rondeau-Mouro C; Macquet A ; et al. (2014)
Local evolution of seed flotation in Arabidopsis.
1 Additional References
GP00001272
AXX17_At2g45450
A0A178VVA1
Physiology
frameshift mutation due to a 1-bp insertion 581 bp after the ATG codon that changed amino acids 194 to 205 followed by the introduction of a stop codon N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
PMEI6
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
PMEL17
Coloration (feathers)
Coding,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Kerje S; Sharma P; Gunnarsson U ; et al. (2004)
The Dominant white, Dun and Smoky color variants in chicken are associated with insertion/deletion p[...]
GP00000913
PMEL
Q98917
Morphology
insertion of amino acid 723-725 due to a 9bp-insert in exon 10
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
PMEL17
Gallus gallus
chicken - (species)
Published - Accepted by Curator
PMEL17
Coloration (coat)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Gutiérrez-Gil B; Wiener P; Williams JL (2007)
Genetic effects on coat colour in cattle: dilution of eumelanin and phaeomelanin pigments in an F2-B[...]
GP00002027
PMEL
Q06154
Morphology
g.57669926G>A c.64G>A p.Gly22Arg
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
PMEL17
Bos taurus
cattle - (species)
Published - Accepted by Curator
PMEL17
Coloration (coat)
Coding,
Insertion
Mus musculus
house mouse - (species) D
Domesticated
Linkage Mapping
Kwon BS; Halaban R; Ponnazhagan S ; et al. (1995)
Mouse silver mutation is caused by a single base insertion in the putative cytoplasmic domain of Pme[...]
GP00002101
Pmel
Q60696
Morphology
single nucleotide (A) insertion in the putative cytoplasmic tail of the si/si Pmel 17 cDNA clone. This insertion is predicted to alter the last 24 amino acids at the C-terminus. Also predicted is the extension of the Pmel 17 protein by 12 residues because a new termination signal is created downstream from the wild-type reading frame. The silver pmel 17 protein has a major defect at the carboxyl terminus.
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species) D
PMEL17
Mus musculus
house mouse - (species)
Published - Accepted by Curator
PMR1
Metal tolerance (manganese)
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species) D
Domesticated
Linkage Mapping
Sadhu MJ; Bloom JS; Day L ; et al. (2016)
CRISPR-directed mitotic recombination enables genetic mapping without crosses.
GP00000914
PMR1
P13586
Physiology
Leu548Phe
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
PMR1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
poils au dos (pad)
Bristle number (thorax)
Coding,
Deletion
N
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Gibert JM; Marcellini S; David JR ; et al. (2005)
A major bristle QTL from a selected population of Drosophila uncovers the zinc-finger transcription [...]
GP00000915
pad
Q9VEW6
Morphology
29bp deletion N
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
poils au dos (pad)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
POLLED locus
Horns absence
Cis-regulatory,
Indel
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Medugorac I; Seichter D; Graf A ; et al. (2012)
Bovine polledness--an autosomal dominant trait with allelic heterogeneity.
2 Additional References
GP00000916
Morphology
complex 202-bp insertion-deletion in a non-coding region resulting in a long non-coding RNA (lncRNA) ectopic expression
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
POLLED locus
Bos taurus
cattle - (species)
Published - Accepted by Curator
POLLED locus
Horns absence
Cis-regulatory,
Insertion
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Medugorac I; Seichter D; Graf A ; et al. (2012)
Bovine polledness--an autosomal dominant trait with allelic heterogeneity.
3 Additional References
GP00002029
Morphology
a 80kb duplication is the "single causal mutation" in Holstein-Friesian cattle complex
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
POLLED locus
Bos taurus
cattle - (species)
Published - Accepted by Curator
Pore-forming toxin-like (PFT)
Pathogen resistance (Fusarium)
Gene Loss,
Indel
N
Triticum aestivum
bread wheat - (species)
Intraspecific
Linkage Mapping
Rawat N; Pumphrey MO; Liu S ; et al. (2016)
Wheat Fhb1 encodes a chimeric lectin with agglutinin domains and a pore-forming toxin-like domain co[...]
GP00001563
Q4JEV5
Physiology
PFT gene is present and constitutively expressed in resistant line and absent in susceptible line N
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
Pore-forming toxin-like (PFT)
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
PPAR-delta
Ear size
Skin aspect
Coding,
SNP
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Ren J; Duan Y; Qiao R ; et al. (2011)
A missense mutation in PPARD causes a major QTL effect on ear size in pigs.
GP00000919
PPARD
Q03181
Morphology
Morphology
G32E
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
PPAR-delta
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
PpeGID1c
Plant size (dwarfism)
Coding,
SNP
N
Prunus persica
peach - (species) D
Domesticated
Linkage Mapping
Hollender CA; Hadiarto T; Srinivasan C ; et al. (2016)
A brachytic dwarfism trait (dw) in peach trees is caused by a nonsense mutation within the gibberell[...]
GP00000920
GID1C
Q940G6
Morphology
Trp162* (TGG>TAG) N
Prunus persica
peach - (species)
Prunus persica
peach - (species) D
PpeGID1c
Prunus persica
peach - (species)
Published - Accepted by Curator
ppw-1
Resistance to dsRNA
Coding,
Deletion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Tijsterman M; Okihara KL; Thijssen K ; et al. (2002)
PPW-1, a PAZ/PIWI protein required for efficient germline RNAi, is defective in a natural isolate of[...]
GP00000921
Physiology
1bp deletion resulting in stop codon N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
ppw-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
Prdm9
Hybrid incompatibility (F1 male sterility)
Recombination rate (use of recombination hotspots)
Unknown,
Unknown
Mus musculus
house mouse - (species)
Intraspecific
Linkage Mapping
Mihola O; Trachtulec Z; Vlcek C ; et al. (2009)
A mouse speciation gene encodes a meiotic histone H3 methyltransferase.
2 Additional References
GP00000922
Prdm9
Q96EQ9
Physiology
Physiology
possible dosage difference (number of gene copies) interacting with an allele that affects post-transcriptional stability
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
Prdm9
Mus musculus
house mouse - (species)
Published - Accepted by Curator
PRDM9
Recombination rate (male)
Coding,
Deletion
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Sandor C; Li W; Coppieters W ; et al. (2012)
Genetic variants in REC8, RNF212, and PRDM9 influence male recombination in cattle.
GP00001640
PRDM9
A6QNW2
Physiology
variation in the C-terminal tandem array of Cys2His2 zinc-finger domains: 22 domains > 20 domains decreasing 6-fold Genome wide hot window usage in Crossing Over
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
PRDM9
Bos taurus
cattle - (species)
Published - Accepted by Curator
PRDM9
Recombination rate (male)
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Sandor C; Li W; Coppieters W ; et al. (2012)
Genetic variants in REC8, RNF212, and PRDM9 influence male recombination in cattle.
GP00001641
PRDM9
A6QNW2
Physiology
variation in the C-terminal tandem array of Cys2His2 zinc-finger domains: T68A p.I23K in domain 11 has a major effect. K allele decreasing 30-fold Genome wide hot window usage in Crossing Over compared to I allele
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
PRDM9
Bos taurus
cattle - (species)
Published - Accepted by Curator
PRDM9
Recombination rate (male)
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Sandor C; Li W; Coppieters W ; et al. (2012)
Genetic variants in REC8, RNF212, and PRDM9 influence male recombination in cattle.
GP00001642
PRDM9
A6QNW2
Physiology
variation in the C-terminal tandem array of Cys2His2 zinc-finger domains: T20C p.A>Y sustitutions in domains 14. Y allele increasing 6-fold Genome wide hot window usage in Crossing Over
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
PRDM9
Bos taurus
cattle - (species)
Published - Accepted by Curator
PRKG2
Body size (dwarfism)
Coding,
SNP
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Koltes JE; Mishra BP; Kumar D ; et al. (2009)
A nonsense mutation in cGMP-dependent type II protein kinase (PRKG2) causes dwarfism in American Ang[...]
GP00002273
PRKG2
Q13237
Morphology
c.1573C>T p.R525* N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
PRKG2
Bos taurus
cattle - (species)
Published - Accepted by Curator
PRKG2
Body size (dwarfism)
Coding,
SNP
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Koltes JE; Mishra BP; Kumar D ; et al. (2009)
A nonsense mutation in cGMP-dependent type II protein kinase (PRKG2) causes dwarfism in American Ang[...]
GP00002274
PRKG2
Q13237
Morphology
c.2032C>T p.R678* N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
PRKG2
Bos taurus
cattle - (species)
Published - Accepted by Curator
Prolactin
Hair length (long)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Littlejohn MD; Henty KM; Tiplady K ; et al. (2014)
Functionally reciprocal mutations of the prolactin signalling pathway define hairy and slick cattle.
GP00002032
PRL
P01239
Morphology
g.35105313A>C - c.661A>C - p.C221G
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Prolactin
Bos taurus
cattle - (species)
Published - Accepted by Curator
Prolactin
Hair length (short)
Coding,
Deletion
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Littlejohn MD; Henty KM; Tiplady K ; et al. (2014)
Functionally reciprocal mutations of the prolactin signalling pathway define hairy and slick cattle.
GP00002033
PRL
P01239
Morphology
1-bp deletion in exon 10 that introduces a premature stop codon (p.Leu462*) and loss of 120 C-terminal amino acids from the long isoform of the receptor (ss1067289408; chr20:39136558GC>G) N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Prolactin
Bos taurus
cattle - (species)
Published - Accepted by Curator
Prolactin receptor
Feather (slow-feathering ; delay)
Other,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Elferink MG; Vallée AA; Jungerius AP ; et al. (2008)
Partial duplication of the PRLR and SPEF2 genes at the late feathering locus in chicken.
1 Additional References
GP00002280
PRLR
P16471
Morphology
tandem duplication of 176324 basepairs resulting in a partially duplicated PRLR (dPRLR) gene nearly identical to the original PRLR ; except for its lack of a 149-amino acid C-terminal tail - which may titrate PRL ligands and act as a dominant-negative receptor
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
Prolactin receptor
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Prolactin receptor
Fertility
Cis-regulatory,
Insertion
Sus scrofa domesticus
domestic pig - (subspecies) D
Domesticated
Linkage Mapping
Sironen A; Fischer D; Laiho A ; et al. (2014)
A recent L1 insertion within SPEF2 gene is associated with changes in PRLR expression in sow reprodu[...]
1 Additional References
GP00002339
PRLR
P16471
Physiology
L1 insertion in sperm-factor SPEF2 gene causes sperm defect but also downregulation of PRLR
Sus scrofa domesticus
domestic pig - (subspecies)
Sus scrofa domesticus
domestic pig - (subspecies) D
Prolactin receptor
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Proline specific permease PUT4
Nitrogen use (growth rate on proline)
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species) D
Intraspecific
Linkage Mapping
Ibstedt S; Stenberg S; Bagés S ; et al. (2015)
Concerted evolution of life stage performances signals recent selection on yeast nitrogen use.
GP00001501
PUT4
P15380
Physiology
several synonymous and promoter mutations
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Proline specific permease PUT4
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
protoporphyrinogen oxidase (PPO2 = PPX2L)
Xenobiotic resistance (herbicides)
Coding,
Deletion
Amaranthus tuberculatus
(species) D
Intraspecific
Linkage Mapping
Patzoldt WL; Hager AG; McCormick JS ; et al. (2006)
A codon deletion confers resistance to herbicides inhibiting protoporphyrinogen oxidase.
GP00000929
PPX2L
Q0NZW6
Physiology
3bp deletion; deletion of G210
Amaranthus tuberculatus
(species)
Amaranthus tuberculatus
(species) D
protoporphyrinogen oxidase (PPO2 = PPX2L)
Amaranthus tuberculatus
(species)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time
Coding,
Deletion
N
Sorghum bicolor
sorghum - (species) D
Domesticated
Linkage Mapping
Murphy RL; Klein RR; Morishige DT ; et al. (2011)
Coincident light and clock regulation of pseudoresponse regulator protein 37 (PRR37) controls photop[...]
GP00000930
PRR37
Q0D3B6
Physiology
1bp deletion resulting in frameshift N
Sorghum bicolor
sorghum - (species)
Sorghum bicolor
sorghum - (species) D
PRR37 pseudoresponse regulator protein 37
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time
2 Mutations:
Coding
SNP
N
Sorghum bicolor
sorghum - (species)
Domesticated
Linkage Mapping
Murphy RL; Klein RR; Morishige DT ; et al. (2011)
Coincident light and clock regulation of pseudoresponse regulator protein 37 (PRR37) controls photop[...]
GP00000931
PRR37
Q0D3B6
Physiology
2 mutations
Sorghum bicolor
sorghum - (species)
Sorghum bicolor
sorghum - (species)
PRR37 pseudoresponse regulator protein 37
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time
Coding,
SNP
Sorghum bicolor
sorghum - (species)
Domesticated
Linkage Mapping
Murphy RL; Klein RR; Morishige DT ; et al. (2011)
Coincident light and clock regulation of pseudoresponse regulator protein 37 (PRR37) controls photop[...]
GP00000932
PRR37
Q0D3B6
Physiology
K162N
Sorghum bicolor
sorghum - (species)
Sorghum bicolor
sorghum - (species)
PRR37 pseudoresponse regulator protein 37
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time (heading date)
Coding,
SNP
N
Oryza sativa Japonica Group
Japanese rice - (no rank) D
Domesticated
Linkage Mapping
Koo BH; Yoo SC; Park JW ; et al. (2013)
Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide ra[...]
GP00001632
PRR37
Q0D3B6
Physiology
Nonfunctional allele PRR37-2a: L710P missense mutation in the CONSTANS-Co-like and TOC1 domain of the protein N
Oryza sativa
rice - (species)
Oryza sativa Japonica Group
Japanese rice - (no rank) D
PRR37 pseudoresponse regulator protein 37
Oryza sativa Japonica Group
Japanese rice - (no rank)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time (heading date)
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Koo BH; Yoo SC; Park JW ; et al. (2013)
Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide ra[...]
GP00001633
PRR37
Q0D3B6
Physiology
Nonfunctional allele PRR37-1a: a 8-bp deletion at position 1515 leading to frameshift N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
PRR37 pseudoresponse regulator protein 37
Oryza sativa
rice - (species)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time (heading date)
Coding,
SNP
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Koo BH; Yoo SC; Park JW ; et al. (2013)
Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide ra[...]
GP00001634
PRR37
Q0D3B6
Physiology
Nonfunctional allele PRR37-1b: Y704H N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
PRR37 pseudoresponse regulator protein 37
Oryza sativa
rice - (species)
Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37
Flowering time (heading date)
Coding,
SNP
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Koo BH; Yoo SC; Park JW ; et al. (2013)
Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide ra[...]
GP00001635
PRR37
Q0D3B6
Physiology
Nonfunctional allele PRR37-1c: a premature stop Q705* N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
PRR37 pseudoresponse regulator protein 37
Oryza sativa
rice - (species)
Published - Accepted by Curator
PRR37-like Photoperiod-H1 (Ppd-H1)
Flowering time
Unknown,
Unknown
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Turner A; Beales J; Faure S ; et al. (2005)
The pseudo-response regulator Ppd-H1 provides adaptation to photoperiod in barley.
1 Additional References
GP00000933
PRR37
Q0D3B6
Physiology
unknown
Hordeum vulgare
(species)
Hordeum vulgare
(species)
PRR37-like Photoperiod-H1 (Ppd-H1)
Hordeum vulgare
(species)
Published - Accepted by Curator
PsbHLH = A
Coloration (flowers)
Coding,
SNP
N
Pisum sativum
pea - (species)
Domesticated
Linkage Mapping
Hellens RP; Moreau C; Lin-Wang K ; et al. (2010)
Identification of Mendel's white flower character.
GP00000935
BHLH
E3SXU4
Morphology
Splice site mutation: a simple G to A transition in a splice donor site that leads to a mis-spliced mRNA with a premature stop codon N
Pisum sativum
pea - (species)
Pisum sativum
pea - (species)
PsbHLH = A
Pisum sativum
pea - (species)
Published - Accepted by Curator
PSMB7
Coloration (coat)
Coding,
SNP
Canis lupus familiaris
dog - (subspecies)
Domesticated
Linkage Mapping
Clark LA; Tsai KL; Starr AN ; et al. (2011)
A missense mutation in the 20S proteasome β2 subunit of Great Danes having harlequin coat patterning[...]
GP00000936
Psmb7
P70195
Morphology
c.146T>G p.V6G
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies)
PSMB7
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
Pto
Pathogen resistance
Unknown,
Unknown
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Martin GB; Brommonschenkel SH; Chunwongse J ; et al. (1993)
Map-based cloning of a protein kinase gene conferring disease resistance in tomato.
GP00000937
pto
P93215
Physiology
Not identified
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species)
Pto
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
PTS/TKD1
Leaf shape
Cis-regulatory,
Deletion
Solanum galapagense
(species) D
Interspecific
Linkage Mapping
Kimura S; Koenig D; Kang J ; et al. (2008)
Natural variation in leaf morphology results from mutation of a novel KNOX gene.
GP00000938
PTS
B2Y2G9
Morphology
1bp deletion at -1232 from start Met
Solanum cheesmaniae
(species)
Solanum galapagense
(species) D
PTS/TKD1
Solanum galapagense
(species)
Published - Accepted by Curator
Purple (Pr)
Plant color
Cis-regulatory,
Unknown
Brassica oleracea var. botrytis
(varietas)
Domesticated
Linkage Mapping
Chiu LW; Zhou X; Burke S ; et al. (2010)
The purple cauliflower arises from activation of a MYB transcription factor.
GP00000939
MYB2
E5D8F5
Morphology
unknown
Brassica oleracea
wild cabbage - (species)
Brassica oleracea var. botrytis
(varietas)
Purple (Pr)
Brassica oleracea var. botrytis
(varietas)
Published - Accepted by Curator
Q = wheat AP2-like (WAP2)
Inflorescence morphology
Spike morphology
Coding,
SNP
Triticum turgidum
(species)
Domesticated
Linkage Mapping
Simons KJ; Fellers JP; Trick HN ; et al. (2006)
Molecular characterization of the major wheat domestication gene Q.
GP00000940
WANT1
C1PH82
Morphology
Morphology
V329I
Triticum turgidum
(species)
Triticum turgidum
(species)
Q = wheat AP2-like (WAP2)
Triticum turgidum
(species)
Published - Accepted by Curator
qPE9-1
Plant architecture
Inflorescence architecture
Coding,
Indel
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Zhou Y; Zhu J; Li Z ; et al. (2009)
Deletion in a quantitative trait gene qPE9-1 associated with panicle erectness improves plant archit[...]
GP00000941
PAY1
B8Y995
Morphology
Morphology
637-bp deletion and 12-bp insertion resulting in truncated protein N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
qPE9-1
Oryza sativa
rice - (species)
Published - Accepted by Curator
qSH1
Seed shattering
Cis-regulatory,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Konishi S; Izawa T; Lin SY ; et al. (2006)
An SNP caused loss of seed shattering during rice domestication.
GP00000942
qSH1
Q941S9
Physiology
1bp change
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
qSH1
Oryza sativa
rice - (species)
Published - Accepted by Curator
qSW5
Grain size
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Shomura A; Izawa T; Ebana K ; et al. (2008)
Deletion in a gene associated with grain size increased yields during rice domestication.
1 Additional References
GP00000944
qSW5
F8SPD1
Morphology
1212bp deletion N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
qSW5
Oryza sativa
rice - (species)
Published - Accepted by Curator
R/glyma09g36983
Coloration (seeds)
Coding,
SNP
N
Glycine max
soybean - (species)
Domesticated
Linkage Mapping
Gillman JD; Tetlow A; Lee JD ; et al. (2011)
Loss-of-function mutations affecting a specific Glycine max R2R3 MYB transcription factor result in [...]
1 Additional References
GP00000946
100780023
K7LFP2
Morphology
C377- creating premature Stop N
Glycine max
soybean - (species)
Glycine max
soybean - (species)
R/glyma09g36983
Glycine max
soybean - (species)
Published - Accepted by Curator
r1 colored1
Coloration (seeds)
Unknown,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Hanson MA; Gaut BS; Stec AO ; et al. (1996)
Evolution of anthocyanin biosynthesis in maize kernels: the role of regulatory and enzymatic loci.
1 Additional References
GP00000947
Z138B04_Z333J11.11
Q8S483
Morphology
insertion of transposable element Ac
Zea mays
(species)
Zea mays
(species) D
r1 colored1
Zea mays
(species)
Published - Accepted by Curator
R2R3 MYB transcription factor
Trichome density (leaf)
Unknown,
Unknown
Erythranthe guttata
spotted monkey flower - (species)
Domesticated
Linkage Mapping
Hendrick MF; Finseth FR; Mathiasson ME ; et al. (2016)
The genetics of extreme microgeographic adaptation: an integrated approach identifies a major gene u[...]
GP00001598
PELAN
A0A060IEP7
Morphology
Unknown ; candidate indel in first intron and a nonsynonymous substitution (glutamine>lysine) in the 3rd exon
Erythranthe guttata
spotted monkey flower - (species)
Erythranthe guttata
spotted monkey flower - (species)
R2R3 MYB transcription factor
Erythranthe guttata
spotted monkey flower - (species)
Published - Accepted by Curator
R2R3-Myb
Coloration (flowers)
Cis-regulatory,
Unknown
Phlox drummondii
(species)
Intraspecific
Linkage Mapping
Hopkins R; Rausher MD (2011)
Identification of two genes causing reinforcement in the Texas wildflower Phlox drummondii.
GP00000948
H8ZS70
Morphology
unknown
Phlox drummondii
(species)
Phlox drummondii
(species)
R2R3-Myb
Phlox drummondii
(species)
Published - Accepted by Curator
RAC1
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Borhan MH; Holub EB; Beynon JL ; et al. (2004)
The arabidopsis TIR-NB-LRR gene RAC1 confers resistance to Albugo candida (white rust) and is depend[...]
GP00000949
ARAC3
Q38912
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RAC1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RAD5
Xenobiotic resistance
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Demogines A; Smith E; Kruglyak L ; et al. (2008)
Identification and dissection of a complex DNA repair sensitivity phenotype in Baker's yeast.
1 Additional References
GP00000950
RAD5
P32849
Physiology
I791S
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
RAD5
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Rap2.7 (vgt1)
Flowering time
Cis-regulatory,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Salvi S; Sponza G; Morgante M ; et al. (2007)
Conserved noncoding genomic sequences associated with a flowering-time quantitative trait locus in m[...]
1 Additional References
GP00000951
RAP2-7
Q9SK03
Physiology
2kb-sequence located 70kb upstream of the Vg1 transcription start site - insertion of a miniature transposon (MITE) belonging to the Tourist family
Zea mays
(species)
Zea mays
(species)
Rap2.7 (vgt1)
Zea mays
(species)
Published - Accepted by Curator
RAS1
Salt tolerance
Abscisic acid sensitivity
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ren Z; Zheng Z; Chinnusamy V ; et al. (2010)
RAS1, a quantitative trait locus for salt tolerance and ABA sensitivity in Arabidopsis.
GP00000953
RAS1
O04515
Physiology
Physiology
Premature stop codon; Lys>STOP N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RAS1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RAS2
Sporulation efficiency
Cis-regulatory,
Insertion
Saccharomyces cerevisiae
baker's yeast - (species) D
Domesticated
Linkage Mapping
Ben-Ari G; Zenvirth D; Sherman A ; et al. (2006)
Four linked genes participate in controlling sporulation efficiency in budding yeast.
GP00000956
RAS2
P01120
Physiology
1bp insertion in promoter
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
RAS2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
RB1
Body size (weight)
Body size (bone length)
Unknown,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Zhang H; Liu SH; Zhang Q ; et al. (2011)
Fine-mapping of quantitative trait loci for body weight and bone traits and positional cloning of th[...]
GP00000957
Morphology
Morphology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
RB1
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Rc
Coloration (seed)
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Sweeney MT; Thomson MJ; Cho YG ; et al. (2007)
Global dissemination of a single mutation conferring white pericarp in rice.
GP00000959
Rc
A7J5U6
Morphology
14bp deletion N
Oryza rufipogon
(species)
Oryza sativa
rice - (species) D
Rc
Oryza sativa
rice - (species)
Published - Accepted by Curator
RCO-A
Leaf shape (simplification)
Cis-regulatory,
Unknown
Capsella grandiflora
(species)
Interspecific
Linkage Mapping
Sicard A; Thamm A; Marona C ; et al. (2014)
Repeated evolutionary changes of leaf morphology caused by mutations to a homeobox gene.
GP00000961
RCO
A0A023NDU4
Morphology
Complex haplotype
Capsella rubella
(species)
Capsella grandiflora
(species)
RCO-A
Capsella grandiflora
(species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001246
At4g11040
Q9T010
Physiology
G892A
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Gene Loss,
Deletion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001247
At4g11040
Q9T010
Physiology
gene loss: -5.7KB at position -4.38KB N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001248
At4g11040
Q9T010
Physiology
-23bp at position 1371 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001249
At4g11040
Q9T010
Physiology
-25bp at position 25 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001250
At4g11040
Q9T010
Physiology
-50bp at position 50; -390bp at position 504 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001251
At4g11040
Q9T010
Physiology
-13bp at position 1440 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001252
At4g11040
Q9T010
Physiology
-2bp at position 1456 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001253
At4g11040
Q9T010
Physiology
-4bp at position 1391 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001254
At4g11040
Q9T010
Physiology
-16bp at position 1054 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001255
At4g11040
Q9T010
Physiology
-19bp at position 594 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001256
At4g11040
Q9T010
Physiology
-2bp at position 606 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001257
At4g11040
Q9T010
Physiology
-4bp at position 11 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001258
At4g11040
Q9T010
Physiology
C684A which causes C135* N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001259
At4g11040
Q9T010
Physiology
4 amino acid changes: N45K; G54R; T55K; E208A - the effect of each single amino acid change has not been tested N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001260
At4g11040
Q9T010
Physiology
-1bp at position 498 causing premature STOP N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RDO5 REDUCED DORMANCY5
Seed dormancy
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Xiang Y; Song B; Née G ; et al. (2016)
Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...]
1 Additional References
GP00001261
At4g11040
Q9T010
Physiology
-1bp at position 498 causing premature STOP N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RDO5 REDUCED DORMANCY5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Rds2
Oxidative stress resistance
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Diezmann S; Dietrich FS (2011)
Oxidative stress survival in a clinical Saccharomyces cerevisiae isolate is influenced by a major qu[...]
GP00000964
RDS2
P19541
Physiology
H251D
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
Rds2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
REC8
Recombination rate (male)
Cis-regulatory,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Sandor C; Li W; Coppieters W ; et al. (2012)
Genetic variants in REC8, RNF212, and PRDM9 influence male recombination in cattle.
GP00001638
REC8
E1BL69
Physiology
A>G in intron 12 with reduction in Genome-wide recombination rate
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
REC8
Bos taurus
cattle - (species)
Published - Accepted by Curator
Reduced height-1 (Rht1)
Plant size (dwarfism)
Coding,
SNP
N
Helianthus annuus
common sunflower - (species) D
Domesticated
Linkage Mapping
Ramos ML; Altieri E; Bulos M ; et al. (2013)
Phenotypic characterization, genetic mapping and candidate gene analysis of a source conferring redu[...]
GP00001728
D8
Q9ST48
Morphology
T-to-C transition corresponding to nucleotide positions 143 - the SNP at position 143 converts a leucine residue in a proline within the conserved DELLA motif—This amino acid position corresponds to amino acid position 57 in the full-length amino acid sequence encoded by the L. sativa DELLA1 nucleotide sequence of GenBank Accession No. BAG71200.1 N
Helianthus annuus
common sunflower - (species)
Helianthus annuus
common sunflower - (species) D
Reduced height-1 (Rht1)
Helianthus annuus
common sunflower - (species)
Published - Accepted by Curator
Reduced height-B1 (RhtB1)
Plant size (dwarfism)
Coding,
SNP
N
Triticum aestivum
bread wheat - (species)
Domesticated
Linkage Mapping
Peng J; Richards DE; Hartley NM ; et al. (1999)
'Green revolution' genes encode mutant gibberellin response modulators.
GP00000965
D8
Q9ST48
Morphology
Q64*; TGA>CGA N
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
Reduced height-B1 (RhtB1)
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
Reduced height-D1 (RhtD1)
Plant size (dwarfism)
Coding,
SNP
N
Triticum aestivum
bread wheat - (species)
Domesticated
Linkage Mapping
Peng J; Richards DE; Hartley NM ; et al. (1999)
'Green revolution' genes encode mutant gibberellin response modulators.
GP00000966
D8
Q9ST48
Morphology
E61*; GGA>TGA N
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
Reduced height-D1 (RhtD1)
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
ref(2)P
Pathogen resistance (sigma virus)
Coding,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Dru P; Bras F; Dezélée S ; et al. (1993)
Unusual variability of the Drosophila melanogaster ref(2)P protein which controls the multiplication[...]
2 Additional References
GP00001994
ref(2)P
P14199
Physiology
Several differences (SNP and indels) are detected between permissive ref(2)Po and restrictive ref(2)Pn strains. Exact causing mutation(s) unknown.
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
ref(2)P
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
ref(2)P
Pathogen resistance (sigma virus)
Coding,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
Dru P; Bras F; Dezélée S ; et al. (1993)
Unusual variability of the Drosophila melanogaster ref(2)P protein which controls the multiplication[...]
2 Additional References
GP00001995
ref(2)P
P14199
Physiology
Several differences (SNP and indels) are detected between permissive ref(2)Po and restrictive ref(2)Pp strains. Exact causing mutation(s) unknown.
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
ref(2)P
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Regulator of G-protein signaling 2 (RGS2)
Anxiety
Unknown,
Unknown
Mus musculus
house mouse - (species)
Intraspecific
Linkage Mapping
Yalcin B; Willis-Owen SA; Fullerton J ; et al. (2004)
Genetic dissection of a behavioral quantitative trait locus shows that Rgs2 modulates anxiety in mic[...]
GP00000967
Rgs2
O08849
Behavior
unknown
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
Regulator of G-protein signaling 2 (RGS2)
Mus musculus
house mouse - (species)
Published - Accepted by Curator
Resistance related Kinase 1 (RKS1)
Pathogen resistance (plant bacteria)
Coding,
SNP
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Huard-Chauveau C; Perchepied L; Debieu M ; et al. (2013)
An atypical kinase under balancing selection confers broad-spectrum disease resistance in Arabidopsi[...]
GP00001599
F15B8.100
Q9SVY5
Physiology
a single-SNP difference in the coding region resulting in an amino acid change in the activation segment relative to the catalytic kinase loop. Other polymorphisms were found in the 5' and 3' regulatory regions. RKS1-L expression is 235.1 fold higher
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
Resistance related Kinase 1 (RKS1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
resistance to dieldrin
Xenobiotic resistance (insecticide)
Coding,
SNP
Anopheles gambiae
African malaria mosquito - (species) D
Intraspecific
Linkage Mapping
Du W; Awolola TS; Howell P ; et al. (2005)
Independent mutations in the Rdl locus confer dieldrin resistance to Anopheles gambiae and An. arabi[...]
GP00000970
Rdl
P25123
Physiology
Ala302Gly
Anopheles gambiae
African malaria mosquito - (species)
Anopheles gambiae
African malaria mosquito - (species) D
resistance to dieldrin
Anopheles gambiae
African malaria mosquito - (species)
Published - Accepted by Curator
resistant to methyl viologen 1 (RMV1)
Polyamine uptake
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Fujita M; Fujita Y; Iuchi S ; et al. (2012)
Natural variation in a polyamine transporter determines paraquat tolerance in Arabidopsis.
GP00000982
RMV1
Q9FFL1
Physiology
Ile377Phe N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
resistant to methyl viologen 1 (RMV1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
retr02/eIF(iso)4E
Pathogen resistance (plant virus)
Coding,
SNP
Brassica rapa
field mustard - (species) D
Domesticated
Linkage Mapping
Qian W; Zhang S; Zhang S ; et al. (2013)
Mapping and candidate-gene screening of the novel Turnip mosaic virus resistance gene retr02 in Chin[...]
GP00000983
EIF(ISO)4E
O04663
Physiology
G152R
Brassica rapa
field mustard - (species)
Brassica rapa
field mustard - (species) D
retr02/eIF(iso)4E
Brassica rapa
field mustard - (species)
Published - Accepted by Curator
RGC2/Dm3
Pathogen resistance
Coding,
Unknown
Lactuca serriola
(species)
Domesticated
Linkage Mapping
Kuang H; Ochoa OE; Nevo E ; et al. (2006)
The disease resistance gene Dm3 is infrequent in natural populations of Lactuca serriola due to dele[...]
GP00000984
RGC2
Q6Y136
Physiology
Various haplotypes detected using PCR - absence of amplification could be due to deletion or to gene conversion
Lactuca serriola
(species)
Lactuca serriola
(species)
RGC2/Dm3
Lactuca serriola
(species)
Published - Accepted by Curator
Rgh4
Pathogen resistance (cyst nematode; parasite)
2 Mutations:
Coding
SNP
Glycine max
soybean - (species)
Domesticated
Linkage Mapping
Liu S; Kandoth PK; Warren SD ; et al. (2012)
A soybean cyst nematode resistance gene points to a new mechanism of plant resistance to pathogens.
GP00001049
SHMT
K4FZF8
Physiology
2 mutations
Glycine max
soybean - (species)
Glycine max
soybean - (species)
Rgh4
Glycine max
soybean - (species)
Published - Accepted by Curator
Rhg1
Pathogen resistance (cyst nematode)
Gene Amplification,
Complex Change
Glycine max
soybean - (species)
Intraspecific
Linkage Mapping
Cook DE; Lee TG; Guo X ; et al. (2012)
Copy number variation of multiple genes at Rhg1 mediates nematode resistance in soybean.
GP00000985
rhg1s
Q8L3Y5
Physiology
Copy number Variant : 10-tandem copies of the gene cluster in resistant strains ; the 3 dissimilar genes participate to resistance
Glycine max
soybean - (species)
Glycine max
soybean - (species)
Rhg1
Glycine max
soybean - (species)
Published - Accepted by Curator
Rhg1
Pathogen resistance (cyst nematode)
Cis-regulatory,
Insertion
Glycine max
soybean - (species) D
Intraspecific
Linkage Mapping
Bayless AM; Zapotocny RW; Han S ; et al. (2019)
The rhg1-a (Rhg1 low-copy) nematode resistance source harbors a copia-family retrotransposon within [...]
GP00002049
rhg1s
Q8L3Y5
Physiology
insertion of a copia retrotransposon within the gene Rhg1 Glyma.18G022500 (α-SNAP-encoding). This transposable element is intact and resides within intron 1; anti-sense to the rhg1-a α-SNAP open reading frame.
Glycine max
soybean - (species)
Glycine max
soybean - (species) D
Rhg1
Glycine max
soybean - (species)
Published - Accepted by Curator
RHO2
Temperature tolerance / virulence
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Intraspecific
Linkage Mapping
Steinmetz LM; Sinha H; Richards DR ; et al. (2002)
Dissecting the architecture of a quantitative trait locus in yeast.
1 Additional References
GP00000986
RHO2
P06781
Physiology
3'UTR polymorphism
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
RHO2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
ripening inhibitor (rin) = LeMADS-RIN and LeMADS-MC
Fruit ripening
Gene Loss,
Deletion
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Vrebalov J; Ruezinsky D; Padmanabhan V ; et al. (2002)
A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (rin) locus.
1 Additional References
GP00000990
MADS-RIN
Q8S4L4
Physiology
2.6kb deletion of the region located between gene LeMADS-RIN and gene LeMADS-MC; resulting in a chimeric mRNA that contains both LeMADS-RIN and LeMADS-MC coding regions.
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species) D
ripening inhibitor (rin) = LeMADS-RIN and LeMADS-MC
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
RLM1
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Staal J; Kaliff M; Bohman S ; et al. (2006)
Transgressive segregation reveals two Arabidopsis TIR-NB-LRR resistance genes effective against Lept[...]
GP00000991
RLM1A
F4I594
Physiology
Digenic; deletion of gene1 and premature stop codons in gene2 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RLM1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RLM2 cluster
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Staal J; Kaliff M; Bohman S ; et al. (2006)
Transgressive segregation reveals two Arabidopsis TIR-NB-LRR resistance genes effective against Lept[...]
GP00000992
RLM1B
Q9CAK1
Physiology
the locus contains two paralogues; one of which is deleted and the other pseudogenized in Ler-0 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RLM2 cluster
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RLM3
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Staal J; Kaliff M; Dewaele E ; et al. (2008)
RLM3, a TIR domain encoding gene involved in broad-range immunity of Arabidopsis to necrotrophic fun[...]
GP00000993
RLM3
Q9FT77
Physiology
gene deletion N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RLM3
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RME1
Sporulation efficiency
Cis-regulatory,
Deletion
Saccharomyces cerevisiae
baker's yeast - (species) D
Domesticated
Linkage Mapping
Deutschbauer AM; Davis RW (2005)
Quantitative trait loci mapped to single-nucleotide resolution in yeast.
GP00000994
RME1
P32338
Physiology
single nucleotide deletion in promoter region
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
RME1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
RME1 [possible pseudo-replicate of laboratory strain entry]
Sporulation efficiency
Cis-regulatory,
Deletion
Saccharomyces cerevisiae
baker's yeast - (species) D
Intraspecific
Linkage Mapping
Gerke J; Lorenz K; Cohen B (2009)
Genetic interactions between transcription factors cause natural variation in yeast.
GP00000995
RME1
P32338
Physiology
single nucleotide deletion in promoter region
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
RME1 [possible pseudo-replicate of laboratory strain entry]
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
RNF212
Recombination rate (male)
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Sandor C; Li W; Coppieters W ; et al. (2012)
Genetic variants in REC8, RNF212, and PRDM9 influence male recombination in cattle.
GP00001639
RNF212
Q495C1
Physiology
T>C p.P259S in exon 12 with reduction in Genome-wide recombination rate
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
RNF212
Bos taurus
cattle - (species)
Published - Accepted by Curator
ROSE INTENSITY1 (ROI1)
Coloration (flowers)
Cis-regulatory,
Unknown
Erythranthe lewisii
(species)
Interspecific
Linkage Mapping
Yuan YW; Sagawa JM; Young RC ; et al. (2013)
Genetic dissection of a major anthocyanin QTL contributing to pollinator-mediated reproductive isola[...]
GP00000996
ROI1
L7VK04
Morphology
unknown but coding variation was ruled out
Erythranthe lewisii
(species)
Erythranthe lewisii
(species)
ROSE INTENSITY1 (ROI1)
Erythranthe lewisii
(species)
Published - Accepted by Curator
ROSEA
Coloration (flowers)
Unknown,
Unknown
Antirrhinum majus
snapdragon - (species)
Intraspecific
Linkage Mapping
Whibley AC; Langlade NB; Andalo C ; et al. (2006)
Evolutionary paths underlying flower color variation in Antirrhinum.
GP00000997
ROS1
Q2VAZ7
Morphology
Not identified
Antirrhinum majus
snapdragon - (species)
Antirrhinum majus
snapdragon - (species)
ROSEA
Antirrhinum majus
snapdragon - (species)
Published - Accepted by Curator
Rp3 cluster
Pathogen resistance
Unknown,
Unknown
Zea mays
(species)
Domesticated
Linkage Mapping
Webb CA; Richter TE; Collins NC ; et al. (2002)
Genetic and molecular characterization of the maize rp3 rust resistance locus.
GP00000999
rp3-1
Q6PW75
Physiology
unknown
Zea mays
(species)
Zea mays
(species)
Rp3 cluster
Zea mays
(species)
Published - Accepted by Curator
RPM1
Pathogen resistance
Gene Loss,
Indel
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Grant MR; McDowell JM; Sharpe AG ; et al. (1998)
Independent deletions of a pathogen-resistance gene in Brassica and Arabidopsis.
2 Additional References
GP00001000
RPM1
Q39214
Physiology
3.7kb indel with a null-state in the sensitive strains N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPM1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPM1
Pathogen resistance
Gene Loss,
Complex Change
N
Brassica napus
rape - (species)
Intraspecific
Linkage Mapping
Grant MR; McDowell JM; Sharpe AG ; et al. (1998)
Independent deletions of a pathogen-resistance gene in Brassica and Arabidopsis.
GP00001001
RPM1
Q39214
Physiology
deletion N
Brassica napus
rape - (species)
Brassica napus
rape - (species)
RPM1
Brassica napus
rape - (species)
Published - Accepted by Curator
RPP1
Hybrid incompatibility
Unknown,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Alcázar R; von Reth M; Bautor J ; et al. (2014)
Analysis of a plant complex resistance gene locus underlying immune-related hybrid incompatibility a[...]
1 Additional References
GP00001281
RPP1
F4J339
Physiology
complex
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP1
Hybrid incompatibility
Unknown,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Alcázar R; von Reth M; Bautor J ; et al. (2014)
Analysis of a plant complex resistance gene locus underlying immune-related hybrid incompatibility a[...]
1 Additional References
GP00001282
RPP1
F4J339
Physiology
complex
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP1-WsA
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Botella MA; Parker JE; Frost LN ; et al. (1998)
Three genes of the Arabidopsis RPP1 complex resistance locus recognize distinct Peronospora parasiti[...]
GP00001002
RPP1
F4J339
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP1-WsA
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP1-WsB
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Botella MA; Parker JE; Frost LN ; et al. (1998)
Three genes of the Arabidopsis RPP1 complex resistance locus recognize distinct Peronospora parasiti[...]
GP00001003
RPP1
F4J339
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP1-WsB
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP1-WsC
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Botella MA; Parker JE; Frost LN ; et al. (1998)
Three genes of the Arabidopsis RPP1 complex resistance locus recognize distinct Peronospora parasiti[...]
GP00001004
RPP1
F4J339
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP1-WsC
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP13
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Interspecific
Linkage Mapping
Rose LE; Bittner-Eddy PD; Langley CH ; et al. (2004)
The maintenance of extreme amino acid diversity at the disease resistance gene, RPP13, in Arabidopsi[...]
GP00001005
RPP13
Q9M667
Physiology
Various haplotypes
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP13
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP2A-RPP2B
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Sinapidou E; Williams K; Nott L ; et al. (2004)
Two TIR:NB:LRR genes are required to specify resistance to Peronospora parasitica isolate Cala2 in A[...]
GP00001006
RPP2A
P51407
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP2A-RPP2B
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP4
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
van der Biezen EA; Freddie CT; Kahn K ; et al. (2002)
Arabidopsis RPP4 is a member of the RPP5 multigene family of TIR-NB-LRR genes and confers downy mild[...]
GP00001007
RPP4
F4JNA9
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP4
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP5
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
van der Biezen EA; Freddie CT; Kahn K ; et al. (2002)
Arabidopsis RPP4 is a member of the RPP5 multigene family of TIR-NB-LRR genes and confers downy mild[...]
1 Additional References
GP00001008
RPP5
F4JNB7
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP5
Pathogen resistance
Gene Amplification,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Parker JE; Coleman MJ; Szabò V ; et al. (1997)
The Arabidopsis downy mildew resistance gene RPP5 shares similarity to the toll and interleukin-1 re[...]
1 Additional References
GP00001009
RPP5
F4JNB7
Physiology
Partial duplication sufficient to increase resistance
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPP8
Pathogen resistance
Coding,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
McDowell JM; Dhandaydham M; Long TA ; et al. (1998)
Intragenic recombination and diversifying selection contribute to the evolution of downy mildew resi[...]
1 Additional References
GP00001010
RPP8
Q8W4J9
Physiology
Chimeric fusion of two paralogues followed by coding divergence
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPP8
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPS2
Pathogen resistance
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Mindrinos M; Katagiri F; Yu GL ; et al. (1994)
The A. thaliana disease resistance gene RPS2 encodes a protein containing a nucleotide-binding site [...]
GP00001011
RPS2
Q42484
Physiology
10bp insertion close to the 5' end causing a frameshift N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RPS2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPS2
Pathogen resistance
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Caicedo AL; Schaal BA; Kunkel BN (1999)
Diversity and molecular evolution of the RPS2 resistance gene in Arabidopsis thaliana.
GP00001012
RPS2
Q42484
Physiology
W235* due to G704A N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPS2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPS4
Pathogen resistance
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Narusaka M; Shirasu K; Noutoshi Y ; et al. (2009)
RRS1 and RPS4 provide a dual Resistance-gene system against fungal and bacterial pathogens.
1 Additional References
GP00001013
RPS4
Q9XGM3
Physiology
5bp deletion resulting in frameshift N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
RPS4
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPS5
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Henk AD; Warren RF; Innes RW (1999)
A new Ac-like transposon of Arabidopsis is associated with a deletion of the RPS5 disease resistance[...]
1 Additional References
GP00001014
RPS5
O64973
Physiology
Deletion N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPS5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RRS1
Pathogen resistance
Coding,
SNP
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Narusaka M; Shirasu K; Noutoshi Y ; et al. (2009)
RRS1 and RPS4 provide a dual Resistance-gene system against fungal and bacterial pathogens.
1 Additional References
GP00001015
RRS1
P0DKH5
Physiology
Premature stop codon N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RRS1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RSF1
Sporulation efficiency
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Intraspecific
Linkage Mapping
Gerke J; Lorenz K; Cohen B (2009)
Genetic interactions between transcription factors cause natural variation in yeast.
GP00001016
HFR1
Q9FE22
Physiology
D181G
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
RSF1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Rx1
Color vision (expression of SWS2b opsin)
Cis-regulatory,
Indel
Tramitichromis intermedius
(species)
Interspecific
Linkage Mapping
Schulte JE; O'Brien CS; Conte MA ; et al. (2014)
Interspecific variation in Rx1 expression controls opsin expression and causes visual system diversi[...]
GP00001441
rx1
O42356
Physiology
413bp deletion located 2.5-kb upstream of the Rx1 translation start site correlating with decreased Rx1 expression
Aulonocara baenschi
Nkhomo-benga peacock cichlid - (species)
Tramitichromis intermedius
(species)
Rx1
Tramitichromis intermedius
(species)
Published - Accepted by Curator
RXFP2
Horns absence
Somatic sex change
Gene Amplification,
Insertion
Ovis aries
sheep - (species)
Domesticated
Linkage Mapping
Johnston SE; Gratten J; Berenos C ; et al. (2013)
Life history trade-offs at a single locus maintain sexually selected genetic variation.
1 Additional References
GP00001019
RXFP2
Q8WXD0
Morphology
Physiology
1833-bp genomic insertion located in the 3'-UTR region of RXFP2
Ovis aries
sheep - (species)
Ovis aries
sheep - (species)
RXFP2
Ovis aries
sheep - (species)
Published - Accepted by Curator
RYR1
Meat content
Coding,
SNP
Sus scrofa
pig - (species) D
Domesticated
Linkage Mapping
Fujii J; Otsu K; Zorzato F ; et al. (1991)
Identification of a mutation in porcine ryanodine receptor associated with malignant hyperthermia.
GP00002338
Ryr1
E9PZQ0
Physiology
p.R615C
Sus scrofa
pig - (species)
Sus scrofa
pig - (species) D
RYR1
Sus scrofa
pig - (species)
Published - Accepted by Curator
S locus supergene (GLO/CFB Cluster)
Flower morphology (heterostyly)
Other,
Complex Change
Primula vulgaris
(species)
Intraspecific
Linkage Mapping
Li J; Cocker JM; Wright J ; et al. (2016)
Genetic architecture and evolution of the S locus supergene in Primula vulgaris.
GP00001392
Morphology
Absence/presence of a supergene constituted by a cluster of 6 genes
Primula vulgaris
(species)
Primula vulgaris
(species)
S locus supergene (GLO/CFB Cluster)
Primula vulgaris
(species)
Published - Accepted by Curator
S5
Hybrid incompatibility (F1 female sterility)
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Chen J; Ding J; Ouyang Y ; et al. (2008)
A triallelic system of S5 is a major regulator of the reproductive barrier and compatibility of indi[...]
GP00001020
GRXS5
Q5QLR2
Physiology
2 non-synonymous changes Leu273Phe and Val471Ala segregate perfectly between japonica (Leu-Val) and japonica (Phe-Ala) - the effect of each amino acid chaeg has not been tested
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
S5
Oryza sativa
rice - (species)
Published - Accepted by Curator
S5 (ORF3-ORF4-ORF5 gene complex)
Hybrid incompatibility (sterility)
Coding,
Complex Change
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Yang J; Zhao X; Cheng K ; et al. (2012)
A killer-protector system regulates both hybrid sterility and segregation distortion in rice.
GP00001021
GRXS5
Q5QLR2
Physiology
System of alleles at three linked genes resulting in killer-protector system (hybrid incompabilitites)
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
S5 (ORF3-ORF4-ORF5 gene complex)
Oryza sativa
rice - (species)
Published - Accepted by Curator
SaM + SaF
Hybrid incompatibility (F1 male sterility)
Unknown,
Unknown
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Long Y; Zhao L; Niu B ; et al. (2008)
Hybrid male sterility in rice controlled by interaction between divergent alleles of two adjacent ge[...]
1 Additional References
GP00001022
SaF+
B6RRX2
Physiology
Intron structure + aa changes on two adjacent coding genes
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
SaM + SaF
Oryza sativa
rice - (species)
Published - Accepted by Curator
SAP (Sterile Apetala)
Petal size
Cis-regulatory,
SNP
Capsella rubella
(species) D
Interspecific
Linkage Mapping
Sicard A; Kappel C; Lee YW ; et al. (2016)
Standing genetic variation in a tissue-specific enhancer underlies selfing-syndrome evolution in Cap[...]
GP00001371
SAP
Q9FKH1
Morphology
5 SNP in intron in particular
Capsella grandiflora
(species)
Capsella rubella
(species) D
SAP (Sterile Apetala)
Capsella rubella
(species)
Published - Accepted by Curator
scabrous
Bristle number (abdomen)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Lai C; Lyman RF; Long AD ; et al. (1994)
Naturally occurring variation in bristle number and DNA polymorphisms at the scabrous locus of Droso[...]
GP00001024
sca
P21520
Morphology
unknown; but different sites than for thorax association
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
scabrous
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
scabrous
Bristle number (thorax)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Lai C; Lyman RF; Long AD ; et al. (1994)
Naturally occurring variation in bristle number and DNA polymorphisms at the scabrous locus of Droso[...]
GP00001025
sca
P21520
Morphology
unknown; but different sites than for abdomen association
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
scabrous
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
SCARB1
Carotenoid content
Coding,
SNP
N
Serinus canaria
common canary - (species) D
Intraspecific
Linkage Mapping
Toomey MB; Lopes RJ; Araújo PM ; et al. (2017)
High-density lipoprotein receptor SCARB1 is required for carotenoid coloration in birds.
GP00001681
Scarb1
Q61009
Morphology
T>G nucleotide substitution in the splice-donor site immediately downstream of exon 4 of the SCARB1 gene. This mutation results in abnormal splicing; with the most abundant transcript lacking exon 4. Isoform 4 of SCARB1; the most abundant transcript isoform in the white recessive canary; is predicted to lack 68 amino acids; a deficiency which disrupts SCARB1 protein function. N
Serinus canaria
common canary - (species)
Serinus canaria
common canary - (species) D
SCARB1
Serinus canaria
common canary - (species)
Published - Accepted by Curator
SCARB1
Coloration (silk; carotenoids)
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Sakudoh T; Iizuka T; Narukawa J ; et al. (2010)
A CD36-related transmembrane protein is coordinated with an intracellular lipid-binding protein in s[...]
GP00001905
Cameo2
D2KXB3
Morphology
difference in expression levels - three non synonymous mutations are also observed in the coding region - the gene is also named Cameo2
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
SCARB1
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
scd-2
Diapause
Coding,
SNP
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Reiner DJ; Ailion M; Thomas JH ; et al. (2008)
C. elegans anaplastic lymphoma kinase ortholog SCD-2 controls dauer formation by modulating TGF-beta[...]
GP00001026
scd-2
O76411
Physiology
Gly985Arg
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
scd-2
Caenorhabditis elegans
(species)
Published - Accepted by Curator
SCRB15
Coloration (silk; carotenoids)
Coding,
Insertion
N
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Sakudoh T; Kuwazaki S; Iizuka T ; et al. (2013)
CD36 homolog divergence is responsible for the selectivity of carotenoid species migration to the si[...]
GP00001904
SCRB15
K7ZRZ1
Morphology
In the F mutant SCRB15 mRNA structure was severely disrupted due to a 1.4 kb genomic insertion in a coding exon N
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
SCRB15
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
Sd1 (=GA20ox-2)
Plant size (height)
2 Mutations:
Coding
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Asano K; Yamasaki M; Takuno S ; et al. (2011)
Artificial selection for a green revolution gene during japonica rice domestication.
GP00001027
GA20OX2
Q0JH50
Morphology
2 mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Sd1 (=GA20ox-2)
Oryza sativa
rice - (species)
Published - Accepted by Curator
Sd1 (=GA20ox-2)
Plant size (dwarfism)
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Sasaki A; Ashikari M; Ueguchi-Tanaka M ; et al. (2002)
Green revolution: a mutant gibberellin-synthesis gene in rice.
3 Additional References
GP00001028
GA20OX2
Q0JH50
Morphology
383bp deletion introducing premature stop codon N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
Sd1 (=GA20ox-2)
Oryza sativa
rice - (species)
Published - Accepted by Curator
sdY
Sex determination
Unknown,
Unknown
Teleostei
teleost fishes - (infraclass)
Interspecific
Linkage Mapping
Yano A; Guyomard R; Nicol B ; et al. (2012)
An immune-related gene evolved into the master sex-determining gene in rainbow trout, Oncorhynchus m[...]
GP00001033
sdy
I7GVT3
Physiology
Novel gene evolution by modification of the irf9 gene; unrelated to sex determination
Oncorhynchus mykiss
rainbow trout - (species)
Teleostei
teleost fishes - (infraclass)
sdY
Teleostei
teleost fishes - (infraclass)
Published - Accepted by Curator
se5
Flowering time
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Izawa T; Oikawa T; Tokutomi S ; et al. (2000)
Phytochromes confer the photoperiodic control of flowering in rice (a short-day plant).
GP00001034
HO1
Q69XJ4
Physiology
1bp deletion in exon 1; causes a frameshift and a premature stop codon N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
se5
Oryza sativa
rice - (species)
Published - Accepted by Curator
SELF PRUNING 5G (SP5G)
Flowering time
Cis-regulatory,
Unknown
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Soyk S; Müller NA; Park SJ ; et al. (2017)
Variation in the flowering gene SELF PRUNING 5G promotes day-neutrality and early yield in tomato.
GP00001564
SP5G
Q84XK9
Physiology
several candidate SNPs and structural variants
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species)
SELF PRUNING 5G (SP5G)
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
self-pruning (sp)
Vegetative/Reproductive state switch
Coding,
SNP
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Pnueli L; Carmel-Goren L; Hareven D ; et al. (1998)
The SELF-PRUNING gene of tomato regulates vegetative to reproductive switching of sympodial meristem[...]
GP00001035
SP
O82088
Morphology
P76L due to CCT->CTT
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species) D
self-pruning (sp)
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Serine/threonine protein kinase RIM15
Nitrogen use (growth efficiency)
Coding,
Insertion
N
Saccharomyces cerevisiae
baker's yeast - (species) D
Intraspecific
Linkage Mapping
Ibstedt S; Stenberg S; Bagés S ; et al. (2015)
Concerted evolution of life stage performances signals recent selection on yeast nitrogen use.
GP00001500
RIM15
P43565
Physiology
2 bp insertion 459_460insCA shifting the reading frame to cause an early stop codon (null allele) N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
Serine/threonine protein kinase RIM15
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
SG3/At4g30720
Growth (shoots)
Coding,
Deletion
N
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Vlad D; Rappaport F; Simon M ; et al. (2010)
Gene transposition causing natural variation for growth in Arabidopsis thaliana.
GP00001036
PDE327
F4JQE2
Physiology
Premature stop codon at the SG3 locus in Bur-0 (a 1bp deletion in exon four of At4g30720 results in a frame shift; predicting a premature stop codon which terminates the ORF after 5 amino acids); but in this accession this gene has a functional copy at a N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
SG3/At4g30720
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Shattering1 - Sh1
Seed shattering
Coding,
Deletion
N
Sorghum bicolor
sorghum - (species) D
Domesticated
Linkage Mapping
Lin Z; Li X; Shannon LM ; et al. (2012)
Parallel domestication of the Shattering1 genes in cereals.
GP00001040
YAB2
Q10FZ7
Physiology
2.2kb deletion at the location of exons 2 and 3 N
Sorghum virgatum
(species)
Sorghum bicolor
sorghum - (species) D
Shattering1 - Sh1
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
Shattering1 - Sh1
Seed shattering
Coding,
Complex Change
Sorghum bicolor
sorghum - (species)
Domesticated
Linkage Mapping
Lin Z; Li X; Shannon LM ; et al. (2012)
Parallel domestication of the Shattering1 genes in cereals.
GP00001041
YAB2
Q10FZ7
Physiology
two promoter variants at positions -1194 and -1185
Sorghum virgatum
(species)
Sorghum bicolor
sorghum - (species)
Shattering1 - Sh1
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
Shattering1 - Sh1
Seed shattering
Coding,
SNP
Sorghum bicolor
sorghum - (species)
Domesticated
Linkage Mapping
Lin Z; Li X; Shannon LM ; et al. (2012)
Parallel domestication of the Shattering1 genes in cereals.
GP00001042
YAB2
Q10FZ7
Physiology
GT-to-GG splice-site variant
Sorghum virgatum
(species)
Sorghum bicolor
sorghum - (species)
Shattering1 - Sh1
Sorghum bicolor
sorghum - (species)
Published - Accepted by Curator
shattering4 - sh4
Seed shattering
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Li C; Zhou A; Sang T (2006)
Rice domestication by reducing shattering.
GP00001046
sh4
Q1PIH9
Physiology
Asn -> Lys
Oryza rufipogon
(species)
Oryza sativa
rice - (species)
shattering4 - sh4
Oryza sativa
rice - (species)
Published - Accepted by Curator
SHELL
Fruit shell thickness
Coding,
SNP
Elaeis guineensis
African oil palm - (species)
Domesticated
Linkage Mapping
Singh R; Low ET; Ooi LC ; et al. (2013)
The oil palm SHELL gene controls oil yield and encodes a homologue of SEEDSTICK.
GP00001047
AGL11
Q38836
Morphology
1a.a substitution in DNA binding domain
Elaeis guineensis
African oil palm - (species)
Elaeis guineensis
African oil palm - (species)
SHELL
Elaeis guineensis
African oil palm - (species)
Published - Accepted by Curator
shrunken-2 (Sh2) = endosperm ADP-glucose pyrophosphorylase large subunit
Feather
Cis-regulatory,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Preiss J; Danner S; Summers PS ; et al. (1990)
Molecular Characterization of the Brittle-2 Gene Effect on Maize Endosperm ADPglucose Pyrophosphoryl[...]
1 Additional References
GP00001050
SH2
P55241
Physiology
insertion of the transposable element Dissociation
Zea mays
(species)
Zea mays
(species) D
shrunken-2 (Sh2) = endosperm ADP-glucose pyrophosphorylase large subunit
Zea mays
(species)
Published - Accepted by Curator
SIR2
Longevity
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Intraspecific
Linkage Mapping
Gresham D; Desai MM; Tucker CM ; et al. (2008)
The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments [...]
GP00001054
SIR2
P06700
Physiology
1 to 5 amino-acid substitutions
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
SIR2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
SKC1 =OsHKT1
Salt tolerance
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Ren ZH; Gao JP; Li LG ; et al. (2005)
A rice quantitative trait locus for salt tolerance encodes a sodium transporter.
GP00001055
HKT8
A2WNZ9
Physiology
several candidate missense mutations
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
SKC1 =OsHKT1
Oryza sativa
rice - (species)
Published - Accepted by Curator
SLB1/2
Pathogen resistance (Root parasitic plant) (root parasitic plant)
Gene Loss,
Deletion
N
Oryza sativa
rice - (species)
Intraspecific
Linkage Mapping
Cardoso C; Zhang Y; Jamil M ; et al. (2014)
Natural variation of rice strigolactone biosynthesis is associated with the deletion of two MAX1 ort[...]
GP00001631
Os01g0700900
M9R6D3
Physiology
deletion of 2 cytochrome P450 genes (Os010700900 & Os01g0701400) N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
SLB1/2
Oryza sativa
rice - (species)
Published - Accepted by Curator
slc2a11b
Coloration (eyes)
Coding,
SNP
N
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Maclary ET; Phillips B; Wauer R ; et al. (2021)
Two Genomic Loci Control Three Eye Colors in the Domestic Pigeon (Columba livia).
2 Additional References
GP00002367
slc2a11b
F6P601
Morphology
"The premature stop codon in pearl-eyed pigeons falls in exon 3 of SLC2A11B, and is predicted to severely truncate the resulting protein from 504 to 57 amino acids."
"Based on genotypes at the two coding SNPs in the pearl eye haplotype, we found that gene expression in embryo head samples only shows changes associated with the pearl eye haplotype in SLC2A11B, and not in any other genes within 15 kb of the pearl eye haplotype, further supporting SLC2A11B as the primary candidate for the pearl eye phenotype (supplementary fig. S3A, Supplementary Material online). Embryo heads homozygous for the pearl allele show a significant reduction in SLC2A11B expression (P = 3.94 × 10−6, two-tailed t-test; supplementary fig. S3B, Supplementary Material online). Analysis of read distribution within the SLC2A11B gene shows a decrease in spliced reads specifically within the first three annotated exons, suggesting that alternative splicing or nonsense-mediated decay may be occurring (supplementary fig. S3D, Supplementary Material online)." N
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
slc2a11b
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
SLC36A1
Coloration (coat)
Coding,
SNP
Equus caballus
horse - (species) D
Domesticated
Linkage Mapping
Cook D; Brooks S; Bellone R ; et al. (2008)
Missense mutation in exon 2 of SLC36A1 responsible for champagne dilution in horses.
GP00002278
SLC36A1
Q7Z2H8
Morphology
c.188C>G p.T63R
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
SLC36A1
Equus caballus
horse - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (coat)
Coding,
SNP
Equus caballus
horse - (species) D
Domesticated
Linkage Mapping
Mariat D; Taourit S; Guérin G (2003 Jan-Feb)
A mutation in the MATP gene causes the cream coat colour in the horse.
GP00001057
SLC45A2
Q9UMX9
Morphology
c.457G>A p.(Asp153Asn)
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
SLC45A2=MATP
Equus caballus
horse - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (feathers)
Coding,
SNP
Coturnix japonica
Japanese quail - (species)
Domesticated
Linkage Mapping
Gunnarsson U; Hellström AR; Tixier-Boichard M ; et al. (2007)
Mutations in SLC45A2 cause plumage color variation in chicken and Japanese quail.
GP00001058
SLC45A2
Q9UMX9
Morphology
G->T transversion at the splice acceptor site just preceding exon 4; causes in-frame skipping of exon 4
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species)
SLC45A2=MATP
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (feathers)
Coding,
Deletion
N
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Gunnarsson U; Hellström AR; Tixier-Boichard M ; et al. (2007)
Mutations in SLC45A2 cause plumage color variation in chicken and Japanese quail.
GP00001059
SLC45A2
Q9UMX9
Morphology
1bp deletion at codon 36; resulting in frameshift and a premature stop codon in exon 1; the corresponding mRNA appears to be degraded by Nonsense-mediated mRNA decay. N
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
SLC45A2=MATP
Gallus gallus
chicken - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (eyes; fur)
Coding,
SNP
Mus musculus
house mouse - (species)
Domesticated
Linkage Mapping
Du J; Fisher DE (2002)
Identification of Aim-1 as the underwhite mouse mutant and its transcriptional regulation by MITF.
GP00001060
SLC45A2
Q9UMX9
Morphology
N153D
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
SLC45A2=MATP
Mus musculus
house mouse - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (feathers)
Coding,
SNP
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014)
Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.
GP00001062
SLC45A2
Q9UMX9
Morphology
His341Arg
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
SLC45A2=MATP
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (coat; albinism)
Coding,
SNP
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Rothammer S; Kunz E; Seichter D ; et al. (2017)
Detection of two non-synonymous SNPs in SLC45A2 on BTA20 as candidate causal mutations for oculocuta[...]
GP00002036
SLC45A2
Q9UMX9
Morphology
exact causing mutation(s) unknown - two possible amino acid changes
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
SLC45A2=MATP
Bos taurus
cattle - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (albinism)
Coding,
Insertion
Oryzias latipes
Japanese medaka - (species) D
Domesticated
Linkage Mapping
Fukamachi S; Shimada A; Shima A (2001)
Mutations in the gene encoding B, a novel transporter protein, reduce melanin content in medaka.
GP00002286
SLC45A2
Q9UMX9
Morphology
tandem insertion of 195 nt identical to the adjacent ORF sequence. This tandem repeat produces an insertion of 65 amino acids
Oryzias latipes
Japanese medaka - (species)
Oryzias latipes
Japanese medaka - (species) D
SLC45A2=MATP
Oryzias latipes
Japanese medaka - (species)
Published - Accepted by Curator
SLC45A2=MATP
Coloration (feathers)
Coding,
SNP
Coturnix japonica
Japanese quail - (species)
Domesticated
Linkage Mapping
Gunnarsson U; Hellström AR; Tixier-Boichard M ; et al. (2007)
Mutations in SLC45A2 cause plumage color variation in chicken and Japanese quail.
GP00002307
SLC45A2
Q9UMX9
Morphology
c.287C>A p.A72D
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species)
SLC45A2=MATP
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
SLCO1B3
Coloration (blue eggs)
Cis-regulatory,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Wang Z; Qu L; Yao J ; et al. (2013)
An EAV-HP insertion in 5' Flanking region of SLCO1B3 causes blue eggshell in the chicken.
GP00001064
SLCO1B3
Q9NPD5
Morphology
TE (EAV-HP) promoter insertion resulting in uterus expression
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
SLCO1B3
Gallus gallus
chicken - (species)
Published - Accepted by Curator
SLCO1B3
Coloration (blue eggs)
Cis-regulatory,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Wang Z; Qu L; Yao J ; et al. (2013)
An EAV-HP insertion in 5' Flanking region of SLCO1B3 causes blue eggshell in the chicken.
GP00001065
SLCO1B3
Q9NPD5
Morphology
TE (EAV-HP) promoter insertion resulting in uterus expression
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
SLCO1B3
Gallus gallus
chicken - (species)
Published - Accepted by Curator
SlMYBATV
Coloration (anthocyanin accumulation in fruits)
Coding,
Insertion
N
Solanum cheesmaniae
(species) D
Intraspecific
Linkage Mapping
Cao X; Qiu Z; Wang X ; et al. (2017)
A putative R3 MYB repressor is the candidate gene underlying atroviolacium, a locus for anthocyanin [...]
GP00001906
CPC
O22059
Morphology; Physiology
SlMYBATV encodes a R3 MYB transcription factor. 4-bp insertion predicted to result in a frame-shift that would alter the protein sequence from amino-acid position 20 onwards by inducing premature termination of translation including the R3/bHLH-binding domain N
Solanum lycopersicum
tomato - (species)
Solanum cheesmaniae
(species) D
SlMYBATV
Solanum cheesmaniae
(species)
Published - Accepted by Curator
slowpoke (slo)
Courtship song (sine song frequency)
Cis-regulatory,
Insertion
Drosophila simulans
(species) D
Intraspecific
Linkage Mapping
Ding Y; Berrocal A; Morita T ; et al. (2016)
Natural courtship song variation caused by an intronic retroelement in an ion channel gene.
GP00001066
slo
Q03720
Behavior
6.7kb "Shelder" retroelement insertion in slowpoke intron; with effect on splicing
Drosophila simulans
(species)
Drosophila simulans
(species) D
slowpoke (slo)
Drosophila simulans
(species)
Published - Accepted by Curator
smooth
Bristle number (abdomen)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Linkage Mapping
zur Lage P; Shrimpton AD; Flavell AJ ; et al. (1997)
Genetic and molecular analysis of smooth, a quantitative trait locus affecting bristle number in Dro[...]
GP00001996
Morphology
exact causing mutation(s) unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
smooth
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
SOX10
Coloration (feathers)
Cis-regulatory,
Deletion
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014)
Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.
GP00001067
Sox10
Q04888
Morphology
melanocyte conserved enhancer deletion
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
SOX10
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
SOX10
Coloration (feathers)
Cis-regulatory,
Deletion
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014)
Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.
GP00001068
Sox10
Q04888
Morphology
melanocyte conserved enhancer deletion
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
SOX10
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
SOX10
Coloration (feathers)
Cis-regulatory,
Deletion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Gunnarsson U; Kerje S; Bed'hom B ; et al. (2011)
The Dark brown plumage color in chickens is caused by an 8.3-kb deletion upstream of SOX10.
1 Additional References
GP00001069
Sox10
Q04888
Morphology
8.3kb deletion upstream of the SOX10 transcription start site
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
SOX10
Gallus gallus
chicken - (species)
Published - Accepted by Curator
SOX5
Bird head comb (reduced comb and wattles)
Cis-regulatory,
Insertion
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Wright D; Boije H; Meadows JR ; et al. (2009)
Copy number variation in intron 1 of SOX5 causes the Pea-comb phenotype in chickens.
GP00001070
Sox5
P35710
Morphology
Copy Number Variation in Intron 1 - about 30 copies of a 3 kb sequence - corresponding to about 85 kb of extra sequence
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
SOX5
Gallus gallus
chicken - (species)
Published - Accepted by Curator
SRF3
Hybrid Incompatibility
Unknown,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Alcázar R; García AV; Kronholm I ; et al. (2010)
Natural variation at Strubbelig Receptor Kinase 3 drives immune-triggered incompatibilities between [...]
1 Additional References
GP00001072
SRF3
Q6R2K3
Physiology
Complex haplotype
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
SRF3
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
SRF3
Hybrid Incompatibility
Unknown,
Complex Change
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Alcázar R; García AV; Kronholm I ; et al. (2010)
Natural variation at Strubbelig Receptor Kinase 3 drives immune-triggered incompatibilities between [...]
1 Additional References
GP00001073
SRF3
Q6R2K3
Physiology
Complex haplotype
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
SRF3
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
srg-34
Diapause (resistance to dauer-inducing pheromone)
Gene Loss,
Deletion
N
Caenorhabditis briggsae
(species)
Domesticated
Linkage Mapping
McGrath PT; Xu Y; Ailion M ; et al. (2011)
Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes.
GP00001074
srg-34
Q9XXQ5
Physiology
33kb deletion N
Caenorhabditis briggsae
(species)
Caenorhabditis briggsae
(species)
srg-34
Caenorhabditis briggsae
(species)
Published - Accepted by Curator
srg-36/37
Diapause (resistance to dauer-inducing pheromone)
Gene Loss,
Deletion
N
Caenorhabditis elegans
(species)
Domesticated
Linkage Mapping
McGrath PT; Xu Y; Ailion M ; et al. (2011)
Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes.
GP00001075
srg-34
Q9XXQ5
Physiology
6795bp deletion N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
srg-36/37
Caenorhabditis elegans
(species)
Published - Accepted by Curator
srg-36/37
Diapause (resistance to dauer-inducing pheromone)
Gene Loss,
Deletion
N
Caenorhabditis elegans
(species)
Domesticated
Linkage Mapping
McGrath PT; Xu Y; Ailion M ; et al. (2011)
Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes.
GP00001076
srg-34
Q9XXQ5
Physiology
4906bp deletion N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
srg-36/37
Caenorhabditis elegans
(species)
Published - Accepted by Curator
srx-43
Pheromone response (ascaroside)
Cis-regulatory,
Unknown
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Greene JS; Brown M; Dobosiewicz M ; et al. (2016)
Balancing selection shapes density-dependent foraging behaviour.
1 Additional References
GP00001319
srx-43
O45767
Physiology
unknown
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
srx-43
Caenorhabditis elegans
(species)
Published - Accepted by Curator
srx-44
Pheromone response (ascaroside)
Cis-regulatory,
Unknown
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Greene JS; Dobosiewicz M; Butcher RA ; et al. (2016)
Regulatory changes in two chemoreceptor genes contribute to a Caenorhabditis elegans QTL for foragin[...]
1 Additional References
GP00001504
srx-43
O45767
Physiology
Phenotypic change mapped to a small region located between 34bp and 72 bp upstream of the srx-44 start codon. This DNA region contains 9 changes between N2 strain and MY14 strain.
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
srx-44
Caenorhabditis elegans
(species)
Published - Accepted by Curator
Starch branching enzyme (SBEI) = rugosus (R)
Starch structure
Seed aspect
Coding,
Insertion
N
Pisum sativum
pea - (species) D
Domesticated
Linkage Mapping
Bhattacharyya MK; Smith AM; Ellis TH ; et al. (1990)
The wrinkled-seed character of pea described by Mendel is caused by a transposon-like insertion in a[...]
GP00001078
SBEI
Q41058
Physiology
Morphology
800 bp TE insertion; probably disrupts the last 61 amino acids of the SBEI protein N
Pisum sativum
pea - (species)
Pisum sativum
pea - (species) D
Starch branching enzyme (SBEI) = rugosus (R)
Pisum sativum
pea - (species)
Published - Accepted by Curator
StCDF1
Latitudinal adaptation
Coding,
Insertion
N
Solanum tuberosum
potato - (species) D
Domesticated
Linkage Mapping
Kloosterman B; Abelenda JA; Gomez Mdel M ; et al. (2013)
Naturally occurring allele diversity allows potato cultivation in northern latitudes.
GP00001079
CDF1
Q8W1E3
Physiology
+7bp insertion resulting in frameshift and truncated protein N
Solanum tuberosum
potato - (species)
Solanum tuberosum
potato - (species) D
StCDF1
Solanum tuberosum
potato - (species)
Published - Accepted by Curator
StCDF1
Latitudinal adaptation
Coding,
Insertion
Solanum tuberosum
potato - (species) D
Domesticated
Linkage Mapping
Kloosterman B; Abelenda JA; Gomez Mdel M ; et al. (2013)
Naturally occurring allele diversity allows potato cultivation in northern latitudes.
GP00001080
CDF1
Q8W1E3
Physiology
865bp insertion leading to a fusion protein
Solanum tuberosum
potato - (species)
Solanum tuberosum
potato - (species) D
StCDF1
Solanum tuberosum
potato - (species)
Published - Accepted by Curator
Style2.1
Flower morphology (style length)
Autogamy
Cis-regulatory,
Unknown
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Chen KY; Cong B; Wing R ; et al. (2007)
Changes in regulation of a transcription factor lead to autogamy in cultivated tomatoes.
GP00001081
100301942
B6CG44
Morphology
Physiology
Not identified
Solanum pennellii
(species)
Solanum lycopersicum
tomato - (species) D
Style2.1
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Sulfotransferase-OXA-Resistance (SULT-OR)
Xenobiotic resistance (oxamniquine)
Coding,
Deletion
Schistosoma mansoni
(species) D
Intraspecific
Linkage Mapping
Valentim CL; Cioli D; Chevalier FD ; et al. (2013)
Genetic and molecular basis of drug resistance and species-specific drug action in schistosome paras[...]
GP00001470
SULT-OR
G4VLE5
Physiology
E142del
Schistosoma mansoni
(species)
Schistosoma mansoni
(species) D
Sulfotransferase-OXA-Resistance (SULT-OR)
Schistosoma mansoni
(species)
Published - Accepted by Curator
Sulfotransferase-OXA-Resistance (SULT-OR)
Xenobiotic resistance (oxamniquine)
Coding,
SNP
Schistosoma mansoni
(species) D
Intraspecific
Linkage Mapping
Valentim CL; Cioli D; Chevalier FD ; et al. (2013)
Genetic and molecular basis of drug resistance and species-specific drug action in schistosome paras[...]
GP00001471
SULT-OR
G4VLE5
Physiology
C35R (T>C)
Schistosoma mansoni
(species)
Schistosoma mansoni
(species) D
Sulfotransferase-OXA-Resistance (SULT-OR)
Schistosoma mansoni
(species)
Published - Accepted by Curator
SUN
Fruit shape
Gene Amplification,
Complex Change
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Xiao H; Jiang N; Schaffner E ; et al. (2008)
A retrotransposon-mediated gene duplication underlies morphological variation of tomato fruit.
GP00001084
100147716
B1N669
Morphology
Gene duplication
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species)
SUN
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Svb/ovo
Trichome pattern (larva)
9 Mutations:
Cis-regulatory
Drosophila sechellia
(species) D
Interspecific
Linkage Mapping
McGregor AP; Orgogozo V; Delon I ; et al. (2007)
Morphological evolution through multiple cis-regulatory mutations at a single gene.
1 Additional References
GP00001085
ovo
P51521
Morphology
9 mutations
Drosophila simulans
(species)
Drosophila mauritiana
(species)
Drosophila sechellia
(species) D
Svb/ovo
Drosophila sechellia
(species)
Published - Accepted by Curator
SVP (SHORT VEGETATIVE PHASE)
Flowering time
Coding,
SNP
Arabidopsis thaliana
thale cress - (species) D
Intraspecific
Linkage Mapping
Méndez-Vigo B; Martínez-Zapater JM; Alonso-Blanco C (2013)
The flowering repressor SVP underlies a novel Arabidopsis thaliana QTL interacting with the genetic [...]
GP00001087
SVP
Q9FVC1
Physiology
Ala32Val
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species) D
SVP (SHORT VEGETATIVE PHASE)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
SWS2
Xenobiotic resistance (alcohol, ethanol)
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Swinnen S; Schaerlaekens K; Pais T ; et al. (2012)
Identification of novel causative genes determining the complex trait of high ethanol tolerance in y[...]
GP00001088
SWS2
P53937
Physiology
unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
SWS2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
SWS2
Sporulation efficiency
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Ben-Ari G; Zenvirth D; Sherman A ; et al. (2006)
Four linked genes participate in controlling sporulation efficiency in budding yeast.
GP00001089
SWS2
P53937
Physiology
unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
SWS2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
T-box transcription factor (TBX3)
Coloration (coat)
Cis-regulatory,
SNP
Equus caballus
horse - (species) D
Intraspecific
Linkage Mapping
Imsland F; McGowan K; Rubin CJ ; et al. (2016)
Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation that underlies Dun camouflage colo[...]
GP00001461
TBX3
O15119
Morphology
G>T predicted to affect binding of the CCAT box-binding transcription factors NF-Y and NF-I ; Differs from the wild-type allele by a SNP downstream of the wild-type TBX3 sequence (located 1067bp downstream of the start of the larger nd2 deletion described in the nd2 entry) with allele nd1 = T compared with the wild-type D allele = G); an ancient variant
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
T-box transcription factor (TBX3)
Equus caballus
horse - (species)
Published - Accepted by Curator
T-box transcription factor (TBX3)
Coloration (coat)
Cis-regulatory,
Deletion
Equus caballus
horse - (species) D
Domesticated
Linkage Mapping
Imsland F; McGowan K; Rubin CJ ; et al. (2016)
Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation that underlies Dun camouflage colo[...]
GP00001462
TBX3
O15119
Morphology
missing sequence of nearly contiguous 1609bp and 8 bp segments
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
T-box transcription factor (TBX3)
Equus caballus
horse - (species)
Published - Accepted by Curator
TAC1
Xenobiotic resistance (drug)
Coding,
SNP
Candida albicans
(species) D
Intraspecific
Linkage Mapping
Coste A; Turner V; Ischer F ; et al. (2006)
A mutation in Tac1p, a transcription factor regulating CDR1 and CDR2, is coupled with loss of hetero[...]
GP00001090
TAC1
A7IZW4
Physiology
N977D
Candida albicans
(species)
Candida albicans
(species) D
TAC1
Candida albicans
(species)
Published - Accepted by Curator
tan
Coloration (abdomen; female)
Cis-regulatory,
Unknown
Drosophila erecta
(species) D
Intraspecific
Linkage Mapping
Yassin A; Bastide H; Chung H ; et al. (2016)
Ancient balancing selection at tan underlies female colour dimorphism in Drosophila erecta.
GP00001097
t
Q9W369
Morphology
exact causing mutation(s) unknown - the t_MSE enhancer from the dark allele drives higher levels of GFP expression in D. melanogaster than from the light allele
Drosophila erecta
(species)
Drosophila erecta
(species) D
tan
Drosophila erecta
(species)
Published - Accepted by Curator
tan
Coloration (abdomen)
Cis-regulatory,
Unknown
Drosophila novamexicana
(species) D
Intraspecific
Linkage Mapping
Wittkopp PJ; Stewart EE; Arnold LL ; et al. (2009)
Intraspecific polymorphism to interspecific divergence: genetics of pigmentation in Drosophila.
GP00001098
t
Q9W369
Morphology
2.7kb non-coding interval; 13 SNPs + 2 indels differing between species
Drosophila americana
(species)
Drosophila novamexicana
(species) D
tan
Drosophila novamexicana
(species)
Published - Accepted by Curator
tan
Coloration (abdomen; male)
2 Mutations:
Cis-regulatory
SNP
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Jeong S; Rebeiz M; Andolfatto P ; et al. (2008)
The evolution of gene regulation underlies a morphological difference between two Drosophila sister [...]
1 Additional References
GP00001099
t
Q9W369
Morphology
2 mutations
Drosophila yakuba
(species)
Drosophila santomea
(species) D
tan
Drosophila santomea
(species)
Published - Accepted by Curator
tan
Coloration (abdomen; male)
Cis-regulatory,
Deletion
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Jeong S; Rebeiz M; Andolfatto P ; et al. (2008)
The evolution of gene regulation underlies a morphological difference between two Drosophila sister [...]
1 Additional References
GP00001100
t
Q9W369
Morphology
san MSE del30 (30bp deletion)
Drosophila yakuba
(species)
Drosophila santomea
(species) D
tan
Drosophila santomea
(species)
Published - Accepted by Curator
tan
Coloration (abdomen; male)
Cis-regulatory,
Deletion
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Jeong S; Rebeiz M; Andolfatto P ; et al. (2008)
The evolution of gene regulation underlies a morphological difference between two Drosophila sister [...]
1 Additional References
GP00001101
t
Q9W369
Morphology
san MSE del212 (212bp deletion)
Drosophila yakuba
(species)
Drosophila santomea
(species) D
tan
Drosophila santomea
(species)
Published - Accepted by Curator
TAO3
Sporulation efficiency
Cis-regulatory,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Deutschbauer AM; Davis RW (2005)
Quantitative trait loci mapped to single-nucleotide resolution in yeast.
GP00001103
TAO3
P40468
Physiology
E1493Q
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
TAO3
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
TaPHS1
Seed dormancy
Coding,
SNP
N
Triticum aestivum
bread wheat - (species)
Domesticated
Linkage Mapping
Liu S; Sehgal SK; Li J ; et al. (2013)
Cloning and characterization of a critical regulator for preharvest sprouting in wheat.
GP00001104
PHS1
D2J2Y0
Physiology
GT-to-AT transition at the 5_ donor splice site (position +646) of intron 3 AND Premature Stop Codon (position +666) N
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
TaPHS1
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
Taqpep
Coloration (coat)
Coding,
SNP
N
Felis catus
domestic cat - (species)
Intraspecific
Linkage Mapping
Kaelin CB; Xu X; Hong LZ ; et al. (2012)
Specifying and sustaining pigmentation patterns in domestic and wild cats.
GP00001108
Lvrn
Q2KHK3
Morphology
W841stop N
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species)
Taqpep
Felis catus
domestic cat - (species)
Published - Accepted by Curator
tartan
Organ size (genitalia; clasper)
Bristle number (genitalia; clasper)
Cis-regulatory,
Unknown
Drosophila mauritiana
(species) D
Interspecific
Linkage Mapping
Hagen JFD; Mendes CC; Blogg A ; et al. (2019)
tartan underlies the evolution of Drosophila male genital morphology.
GP00002047
trn
Q9VU51
Morphology
Morphology
no coding changes
Drosophila simulans
(species)
Drosophila mauritiana
(species) D
tartan
Drosophila mauritiana
(species)
Published - Accepted by Curator
TAS1R3
Taste sensitivity (sugar)
Coding,
SNP
Mus musculus
house mouse - (species)
Intraspecific
Linkage Mapping
Max M; Shanker YG; Huang L ; et al. (2001)
Tas1r3, encoding a new candidate taste receptor, is allelic to the sweet responsiveness locus Sac.
1 Additional References
GP00001110
TAS1R3
Q7RTX0
Physiology
I60T; is predicted to introduce a novel N-linked glycosylation site which might interfere with receptor dimerization
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
TAS1R3
Mus musculus
house mouse - (species)
Published - Accepted by Curator
Tbx5
Limb Identity (feathered feet)
Cis-regulatory,
Unknown
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Kronenberg Z; Infante CR ; et al. (2016)
Molecular shifts in limb identity underlie development of feathered feet in two domestic avian speci[...]
GP00001114
TBX5
Q9PWE8
Morphology
unknown
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
Tbx5
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
TBXT
Organ size (tail; short)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Zhi D; Da L; Liu M ; et al. (2018)
Whole Genome Sequencing of Hulunbuir Short-Tailed Sheep for Identifying Candidate Genes Related to t[...]
1 Additional References
GP00002289
Tbxt
P20293
Morphology
c.G334T p.G112W
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
TBXT
Ovis aries
sheep - (species)
Published - Accepted by Curator
TBXT
Organ size (tail; short)
Coding,
SNP
Canis lupus familiaris
dog - (subspecies) D
Domesticated
Linkage Mapping
Haworth K; Putt W; Cattanach B ; et al. (2001)
Canine homolog of the T-box transcription factor T; failure of the protein to bind to its DNA target[...]
3 Additional References
GP00002340
Tbxt
P20293
Morphology
c.189C>G p.I63M
Canis lupus familiaris
dog - (subspecies)
Canis lupus familiaris
dog - (subspecies) D
TBXT
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
teosinte branched 1 (tb1)
Plant architecture
Inflorescence architecture
Cis-regulatory,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Clark RM; Wagler TN; Quijada P ; et al. (2006)
A distant upstream enhancer at the maize domestication gene tb1 has pleiotropic effects on plant and[...]
2 Additional References
GP00001116
TB1
Q93WI2
Morphology
Morphology
Hopscotch TE insertion
Zea mays
(species)
Zea mays
(species) D
teosinte branched 1 (tb1)
Zea mays
(species)
Published - Accepted by Curator
teosinte glume architecture (tga1)
Cupule retraction
Coding,
SNP
Zea mays
(species)
Domesticated
Linkage Mapping
Wang H; Nussbaum-Wagler T; Li B ; et al. (2005)
The origin of the naked grains of maize.
GP00001118
TGA1
Q39237
Morphology
K6N; the lysine residue being conserved in rice and wheat
Zea mays
(species)
Zea mays
(species)
teosinte glume architecture (tga1)
Zea mays
(species)
Published - Accepted by Curator
TFL1 / HvCEN
Growth determination habit
Coding,
SNP
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Comadran J; Kilian B; Russell J ; et al. (2012)
Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and [...]
GP00001119
TFL1
P93003
Physiology
P135A
Hordeum vulgare
(species)
Hordeum vulgare
(species)
TFL1 / HvCEN
Hordeum vulgare
(species)
Published - Accepted by Curator
TFL1/FvTFL1
Flowering time
Seasonal growth
Cis-regulatory,
Unknown
Fragaria vesca
wild strawberry - (species)
Intraspecific
Linkage Mapping
Koskela EA; Mouhu K; Albani MC ; et al. (2012)
Mutation in TERMINAL FLOWER1 reverses the photoperiodic requirement for flowering in the wild strawb[...]
GP00001120
TFL1
P93003
Physiology
Physiology
unknown
Fragaria vesca
wild strawberry - (species)
Fragaria vesca
wild strawberry - (species)
TFL1/FvTFL1
Fragaria vesca
wild strawberry - (species)
Published - Accepted by Curator
TFL1/GmTFL1
Growth determination habit
Coding,
SNP
Glycine max
soybean - (species)
Domesticated
Linkage Mapping
Tian Z; Wang X; Lee R ; et al. (2010)
Artificial selection for determinate growth habit in soybean.
GP00001121
TFL1
P93003
Physiology
R62S
Glycine max
soybean - (species)
Glycine max
soybean - (species)
TFL1/GmTFL1
Glycine max
soybean - (species)
Published - Accepted by Curator
Thermo-tolerance 1 (TT1)
Temperature tolerance
Coding,
SNP
Oryza glaberrima
African rice - (species) D
Interspecific
Linkage Mapping
Li XM; Chao DY; Wu Y ; et al. (2015)
Natural alleles of a proteasome α2 subunit gene contribute to thermotolerance and adaptation of Afri[...]
GP00001566
PAB1
Q10KF0
Physiology
p.R99H
Oryza sativa
rice - (species)
Oryza glaberrima
African rice - (species) D
Thermo-tolerance 1 (TT1)
Oryza glaberrima
African rice - (species)
Published - Accepted by Curator
thioester-containing protein 1
Pathogen resistance (Plasmodium; malaria parasite)
Coding,
Unknown
Anopheles coluzzii
(species)
Intraspecific
Linkage Mapping
Blandin SA; Wang-Sattler R; Lamacchia M ; et al. (2009)
Dissecting the genetic basis of resistance to malaria parasites in Anopheles gambiae.
1 Additional References
GP00001125
TEP-I
Q9GYW4
Physiology
coding change - exact causing mutation(s) unknown
Anopheles gambiae
African malaria mosquito - (species)
Anopheles coluzzii
(species)
thioester-containing protein 1
Anopheles coluzzii
(species)
Published - Accepted by Curator
THOUSAND-GRAIN WEIGHT 6 (TGW6)
Grain yield
Coding,
Deletion
N
Oryza sativa
rice - (species) D
Domesticated
Linkage Mapping
Ishimaru K; Hirotsu N; Madoka Y ; et al. (2013)
Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yie[...]
GP00001126
TGW6
Q69U01
Morphology
-1bp at +313 resulting in truncated protein N
Oryza sativa
rice - (species)
Oryza sativa
rice - (species) D
THOUSAND-GRAIN WEIGHT 6 (TGW6)
Oryza sativa
rice - (species)
Published - Accepted by Curator
TICAM1
Pathogen resistance (Trypanosoma)
Coding,
Unknown
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Noyes H; Brass A; Obara I ; et al. (2011)
Genetic and expression analysis of cattle identifies candidate genes in pathways responding to Trypa[...]
GP00001128
TICAM1
Q8IUC6
Physiology
unknown
Bos
oxen, cattle - (genus)
Bos taurus
cattle - (species)
TICAM1
Bos taurus
cattle - (species)
Published - Accepted by Curator
TMEM263
Body size (dwarfism)
Coding,
SNP
N
Gallus gallus
chicken - (species) D
Domesticated
Linkage Mapping
Wu Z; Derks MFL; Dibbits B ; et al. (2018)
A Novel Loss-of-Function Variant in Transmembrane Protein 263 (TMEM263) of Autosomal Dwarfism in Chi[...]
GP00002161
Physiology
g.53688583C>T c.433G>A p.Trp59∗ N
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species) D
TMEM263
Gallus gallus
chicken - (species)
Published - Accepted by Curator
touch insensitive larva B (tilB)
Pupation site choice
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Pischedda A; Shahandeh MP; Turner TL (2020)
The Loci of Behavioral Evolution: Evidence That Fas2 and tilB Underlie Differences in Pupation Site [...]
GP00002344
tilB
Q9VR52
Behavior
Gene identified via deficiency mapping. Gene more highly expressed in D. melanogaster than in D. simulans. RNAi in D. melanogaster leads to pupae pupating closer to the food.
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
touch insensitive larva B (tilB)
Drosophila simulans
(species)
Published - Accepted by Curator
tra-3 calpain-like protease
Body size (temperature-size interaction)
Coding,
SNP
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Kammenga JE; Doroszuk A; Riksen JA ; et al. (2007)
A Caenorhabditis elegans wild type defies the temperature-size rule owing to a single nucleotide pol[...]
GP00001133
tra-3
Q22036
Physiology
F96L
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
tra-3 calpain-like protease
Caenorhabditis elegans
(species)
Published - Accepted by Curator
TRK1
Salt tolerance (ammonium)
Coding,
SNP
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Reisser C; Dick C; Kruglyak L ; et al. (2013)
Genetic Basis of Ammonium Toxicity Resistance in a Sake Strain of Yeast: A Mendelian Case.
GP00001139
NTRK1
P04629
Physiology
Candidate a.a substitutions in K12 : C1143S; H551P; E1190G; Q1227K
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
TRK1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
TRPM1
Coloration (coat)
Cis-regulatory,
Insertion
Equus caballus
horse - (species) D
Intraspecific
Linkage Mapping
Bellone RR; Forsyth G; Leeb T ; et al. (2010)
Fine-mapping and mutation analysis of TRPM1: a candidate gene for leopard complex (LP) spotting and [...]
3 Additional References
GP00001140
TRPM1
Q7Z4N2
Morphology
a 1378 bp retroviral LTR insertion in intron 1 of TRPM1
Equus caballus
horse - (species)
Equus caballus
horse - (species) D
TRPM1
Equus caballus
horse - (species)
Published - Accepted by Curator
TSA2
Xenobiotic resistance (hydrogen peroxide)
Gene Amplification,
Complex Change
Saccharomyces cerevisiae
baker's yeast - (species) D
Experimental Evolution
Linkage Mapping
Linder RA; Greco JP; Seidl F ; et al. (2017)
The Stress-Inducible Peroxidase TSA2 Underlies a Conditionally Beneficial Chromosomal Duplication in[...]
GP00001831
TSA2
Q04120
Physiology
Chromosome 4 whole duplication. Using a genetic mapping strategy that involves systematically deleting segments of a duplicated chromosome; the authors show that the chromosome IV’s duplication effect is largely due to the generation of a second copy of the stress-inducible cytoplasmic thioredoxin peroxidase TSA2.
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species) D
TSA2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
TT8
Coloration (seed)
Coding,
Insertion
N
Brassica rapa
field mustard - (species) D
Domesticated
Linkage Mapping
Li X; Chen L; Hong M ; et al. (2012)
A large insertion in bHLH transcription factor BrTT8 resulting in yellow seed coat in Brassica rapa.
GP00002077
TT8
Q9FT81
Morphology
insertion of a Helitron transposon of 4320 bp in intron 2 starting with 5' TC and ending with 3'CTAG containing a 17 bp palindromic region forming a hairpin - prevents transcription N
Brassica rapa
field mustard - (species)
Brassica rapa
field mustard - (species) D
TT8
Brassica rapa
field mustard - (species)
Published - Accepted by Curator
Twist1
Horn shape (scurs)
Coding,
Insertion
N
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Capitan A; Grohs C; Weiss B ; et al. (2011)
A newly described bovine type 2 scurs syndrome segregates with a frame-shift mutation in TWIST1.
GP00002034
Twist1
P26687
Morphology; Physiology
small duplication (c.148_157dup (p.A56RfsX87)) that causes a frameshift and inactivates the gene. N
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Twist1
Bos taurus
cattle - (species)
Published - Accepted by Curator
Twist2
Coloration (coat; white belt)
Cis-regulatory,
Insertion
Bos taurus
cattle - (species) D
Domesticated
Linkage Mapping
Awasthi Mishra N; Drögemüller C; Jagannathan V ; et al. (2017)
A structural variant in the 5'-flanking region of the TWIST2 gene affects melanocyte development in [...]
2 Additional References
GP00002035
Twist2
Q9D030
Morphology
quadruplication (CNV) of a 6 kb non-coding sequence located approximately 16 kb upstream of the TWIST2 gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Twist2
Bos taurus
cattle - (species)
Published - Accepted by Curator
Tyramine receptor 3
Exploration decision
Unknown,
Unknown
Caenorhabditis elegans
(species)
Intraspecific
Linkage Mapping
Bendesky A; Tsunozaki M; Rockman MV ; et al. (2011)
Catecholamine receptor polymorphisms affect decision-making in C. elegans.
GP00001141
tyra-3
Q7JNP9
Behavior
Non-coding
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species)
Tyramine receptor 3
Caenorhabditis elegans
(species)
Published - Accepted by Curator
tyrosinase (TYR)
Coloration (coat)
Coding,
SNP
Felis catus
domestic cat - (species) D
Domesticated
Linkage Mapping
Lyons LA; Imes DL; Rah HC ; et al. (2005)
Tyrosinase mutations associated with Siamese and Burmese patterns in the domestic cat (Felis catus).
1 Additional References
GP00001142
Tyr
P11344
Morphology
c.679G>T p.G227W
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species) D
tyrosinase (TYR)
Felis catus
domestic cat - (species)
Published - Accepted by Curator
tyrosinase (TYR)
Coloration (coat)
Coding,
SNP
Felis catus
domestic cat - (species) D
Domesticated
Linkage Mapping
Lyons LA; Imes DL; Rah HC ; et al. (2005)
Tyrosinase mutations associated with Siamese and Burmese patterns in the domestic cat (Felis catus).
1 Additional References
GP00001143
Tyr
P11344
Morphology
c. 940G>A p.G302R
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species) D
tyrosinase (TYR)
Felis catus
domestic cat - (species)
Published - Accepted by Curator
tyrosinase (TYR)
Coloration (coat)
Coding,
Deletion
Mustela putorius furo
domestic ferret - (subspecies) D
Domesticated
Linkage Mapping
Blaszczyk WM; Distler C; Dekomien G ; et al. (2007)
Identification of a tyrosinase (TYR) exon 4 deletion in albino ferrets (Mustela putorius furo).
GP00002310
Tyr
P11344
Morphology
Deletion of exon 4 as detected by Southern Blot
Mustela putorius furo
domestic ferret - (subspecies)
Mustela putorius furo
domestic ferret - (subspecies) D
tyrosinase (TYR)
Mustela putorius furo
domestic ferret - (subspecies)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
SNP
Bos taurus
cattle - (species)
Domesticated
Linkage Mapping
Berryere TG; Schmutz SM; Schimpf RJ ; et al. (2003)
TYRP1 is associated with dun coat colour in Dexter cattle or how now brown cow?
GP00001145
Tyrp1
P07147
Morphology
c.1300C>T p.H434Y
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
tyrosinase-related protein 1 (TYRP1)
Bos taurus
cattle - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (feathers)
Coding,
SNP
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014)
Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.
GP00001149
Tyrp1
P07147
Morphology
Ala23Pro
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
tyrosinase-related protein 1 (TYRP1)
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (feathers)
Coding,
SNP
N
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014)
Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.
GP00001150
Tyrp1
P07147
Morphology
Arg72* N
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
tyrosinase-related protein 1 (TYRP1)
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (feathers)
Coding,
Deletion
N
Columba livia
rock pigeon - (species) D
Domesticated
Linkage Mapping
Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014)
Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.
GP00001151
Tyrp1
P07147
Morphology
7-bp deletion 411-418del resulting in null allele N
Columba livia
rock pigeon - (species)
Columba livia
rock pigeon - (species) D
tyrosinase-related protein 1 (TYRP1)
Columba livia
rock pigeon - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (feathers)
Coding,
SNP
Coturnix japonica
Japanese quail - (species)
Domesticated
Linkage Mapping
Nadeau NJ; Mundy NI; Gourichon D ; et al. (2007)
Association of a single-nucleotide substitution in TYRP1 with roux in Japanese quail (Coturnix japon[...]
GP00001152
Tyrp1
P07147
Morphology
Phe282Ser
Coturnix japonica
Japanese quail - (species)
Coturnix japonica
Japanese quail - (species)
tyrosinase-related protein 1 (TYRP1)
Coturnix japonica
Japanese quail - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
SNP
N
Felis catus
domestic cat - (species) D
Domesticated
Linkage Mapping
Schmidt-Küntzel A; Eizirik E; O'Brien SJ ; et al. (2005 Jul-Aug)
Tyrosinase and tyrosinase related protein 1 alleles specify domestic cat coat color phenotypes of th[...]
1 Additional References
GP00001153
Tyrp1
P07147
Morphology
premature UAG stop codon at position 100 of TYRP1; AAG>TAG c.298C>T p.R100* N
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species) D
tyrosinase-related protein 1 (TYRP1)
Felis catus
domestic cat - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
Unknown
Felis catus
domestic cat - (species) D
Domesticated
Linkage Mapping
Schmidt-Küntzel A; Eizirik E; O'Brien SJ ; et al. (2005 Jul-Aug)
Tyrosinase and tyrosinase related protein 1 alleles specify domestic cat coat color phenotypes of th[...]
GP00001154
Tyrp1
P07147
Morphology
Two mutations associated with the chocolate (b) allele - one leading to a TYRP1-A3G substitution in the signal peptide and another to an in-frame insertion TYRP1-421ins17/18 caused by a donor splice site mutation in intron 6 -exact causing change unknown
Felis catus
domestic cat - (species)
Felis catus
domestic cat - (species) D
tyrosinase-related protein 1 (TYRP1)
Felis catus
domestic cat - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Gratten J; Beraldi D; Lowder BV ; et al. (2007)
Compelling evidence that a single nucleotide substitution in TYRP1 is responsible for coat-colour po[...]
GP00001156
Tyrp1
P07147
Morphology
c. 869G>T p.C290F ; Cys residue involved shows a high degree of evolutionary conservation; it is conserved not only across vertebrates but also in the two paralogues of TYRP1, DCT and TYR
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
tyrosinase-related protein 1 (TYRP1)
Ovis aries
sheep - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (feathers)
Coding,
SNP
Gallus gallus
chicken - (species)
Domesticated
Linkage Mapping
Li J; Bed'hom B; Marthey S ; et al. (2019)
A missense mutation in TYRP1 causes the chocolate plumage color in chicken and alters melanosome str[...]
GP00002126
Tyrp1
P07147
Morphology
g.30830367C>A c.640C>A p.His214Asn
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
tyrosinase-related protein 1 (TYRP1)
Gallus gallus
chicken - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
SNP
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Raadsma HW; Jonas E; Fleet MR ; et al. (2013)
QTL and association analysis for skin and fibre pigmentation in sheep provides evidence of a major c[...]
GP00002237
Tyrp1
P07147
Morphology
c.2240C>G p.A746V
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
tyrosinase-related protein 1 (TYRP1)
Ovis aries
sheep - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
Deletion
N
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Paris JM; Letko A; Häfliger IM ; et al. (2019)
Identification of two TYRP1 loss-of-function alleles in Valais Red sheep.
GP00002238
Tyrp1
P07147
Morphology
c.86_87delGA p.(Glu29ValfsTer5) N
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
tyrosinase-related protein 1 (TYRP1)
Ovis aries
sheep - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
SNP
N
Ovis aries
sheep - (species) D
Domesticated
Linkage Mapping
Paris JM; Letko A; Häfliger IM ; et al. (2019)
Identification of two TYRP1 loss-of-function alleles in Valais Red sheep.
GP00002239
Tyrp1
P07147
Morphology
c.1066C>T p.(Arg356*) N
Ovis aries
sheep - (species)
Ovis aries
sheep - (species) D
tyrosinase-related protein 1 (TYRP1)
Ovis aries
sheep - (species)
Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)
Coloration (coat)
Coding,
SNP
N
Oryctolagus cuniculus
rabbit - (species) D
Domesticated
Linkage Mapping
Utzeri VJ; Ribani A; Fontanesi L (2014)
A premature stop codon in the TYRP1 gene is associated with brown coat colour in the European rabbit[...]
GP00002240
Tyrp1
P07147
Morphology
c.570G>A p.Trp190ter N
Oryctolagus cuniculus
rabbit - (species)
Oryctolagus cuniculus
rabbit - (species) D
tyrosinase-related protein 1 (TYRP1)
Oryctolagus cuniculus
rabbit - (species)
Published - Accepted by Curator
TZP
Plant growth (hypocotyl growth - light and temperature dependant)
Coding,
Insertion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Loudet O; Michael TP; Burger BT ; et al. (2008)
A zinc knuckle protein that negatively controls morning-specific growth in Arabidopsis thaliana.
GP00001269
TZP
Q9FIX7
Morphology
8bp insertion causing premature stop N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
TZP
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Ubiquitin-specific peptidase 46 (Usp46)
Escape behavior (immobility in inescapable situations)
Coding,
Deletion
Mus musculus
house mouse - (species) D
Intraspecific
Linkage Mapping
Tomida S; Mamiya T; Sakamaki H ; et al. (2009)
Usp46 is a quantitative trait gene regulating mouse immobile behavior in the tail suspension and for[...]
GP00001159
Usp46
P62069
Behavior
1a.a. deletion
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species) D
Ubiquitin-specific peptidase 46 (Usp46)
Mus musculus
house mouse - (species)
Published - Accepted by Curator
UDP-glycosyltransferase 89A2
Plant secondary metabolites (xylosides vs. glucosides ratio)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Li X; Svedin E; Mo H ; et al. (2014)
Exploiting natural variation of secondary metabolism identifies a gene controlling the glycosylation[...]
GP00001278
UGT89A2
Q9LZD8
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
UDP-glycosyltransferase 89A2
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
UGT86 (Bm-UGT10286)
Coloration (cocoon)
Gene Loss,
Deletion
N
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Daimon T; Hirayama C; Kanai M ; et al. (2010)
The silkworm Green b locus encodes a quercetin 5-O-glucosyltransferase that produces green cocoons w[...]
1 Additional References
GP00001160
Bm-UGT10286
D6RUU6
Physiology
38kb gene deletion N
Bombyx
(genus)
Bombyx mori
domestic silkworm - (species) D
UGT86 (Bm-UGT10286)
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
Unpaired-like
Wing shape (sex-specific)
Wing size
Cis-regulatory,
Unknown
Nasonia giraulti
(species)
Interspecific
Linkage Mapping
Loehlin DW; Werren JH (2012)
Evolution of shape by multiple regulatory changes to a growth gene.
GP00001163
upd1
O96525
Morphology
Morphology
three regions
Nasonia vitripennis
jewel wasp - (species)
Nasonia giraulti
(species)
Unpaired-like
Nasonia giraulti
(species)
Published - Accepted by Curator
Vanaso / disc losts
Olfactory behavior
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Linkage Mapping
Fanara JJ; Robinson KO; Rollmann SM ; et al. (2002)
Vanaso is a candidate quantitative trait gene for Drosophila olfactory behavior.
GP00001164
dlt
Q8T626
Behavior
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Vanaso / disc losts
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Vertnin (VRTN)
Vertebrae number
Cis-regulatory,
Unknown
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Mikawa S; Sato S; Nii M ; et al. (2011)
Identification of a second gene associated with variation in vertebral number in domestic pigs.
GP00001165
Vrtn
Q3SYK4
Morphology
unknown ; observed transposon insertion in intron and promoter variation
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
Vertnin (VRTN)
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
Vertnin (VRTN) [possibly a pseudo-replicate of other Pig entry]
Vertebrae number
Unknown,
Unknown
Sus scrofa domesticus
domestic pig - (subspecies)
Domesticated
Linkage Mapping
Ren DR; Ren J; Ruan GF ; et al. (2012)
Mapping and fine mapping of quantitative trait loci for the number of vertebrae in a White Duroc × C[...]
GP00001166
Vrtn
Q3SYK4
Morphology
unknown
Sus scrofa
pig - (species)
Sus scrofa domesticus
domestic pig - (subspecies)
Vertnin (VRTN) [possibly a pseudo-replicate of other Pig entry]
Sus scrofa domesticus
domestic pig - (subspecies)
Published - Accepted by Curator
VIN3
Flowering time
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ågren J; Oakley CG; Lundemo S ; et al. (2017)
Adaptive divergence in flowering time among natural populations of Arabidopsis thaliana: Estimates o[...]
GP00001538
VIN3
Q9FIE3
Physiology
4 nonsynonymous substitutions and a 3 bp deletion
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
VIN3
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Vkorc1
Xenobiotic resistance (anti-coagulant drug response; warfarin)
Coding,
SNP
Homo sapiens
human - (species) D
Intraspecific
Linkage Mapping
Rost S; Fregin A; Ivaskevicius V ; et al. (2004)
Mutations in VKORC1 cause warfarin resistance and multiple coagulation factor deficiency type 2.
2 Additional References
GP00001168
VKORC1
Q9BQB6
Physiology
R98W
Homo sapiens
human - (species)
Homo sapiens
human - (species) D
Vkorc1
Homo sapiens
human - (species)
Published - Accepted by Curator
Vkorc1
Xenobiotic resistance (rodenticide; warfarin)
Coding,
SNP
Rattus norvegicus
Norway rat - (species)
Intraspecific
Linkage Mapping
Rost S; Fregin A; Ivaskevicius V ; et al. (2004)
Mutations in VKORC1 cause warfarin resistance and multiple coagulation factor deficiency type 2.
GP00001175
VKORC1
Q9BQB6
Physiology
Y139C
Rattus norvegicus
Norway rat - (species)
Rattus norvegicus
Norway rat - (species)
Vkorc1
Rattus norvegicus
Norway rat - (species)
Published - Accepted by Curator
VRN1
Flowering time
Cis-regulatory,
Deletion
Triticum aestivum
bread wheat - (species) D
Domesticated
Linkage Mapping
Trevaskis B; Bagnall DJ; Ellis MH ; et al. (2003)
MADS box genes control vernalization-induced flowering in cereals.
GP00001184
VRN1
Q8L3W1
Physiology
Deletion
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species) D
VRN1
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
VRN1
Flowering time
Cis-regulatory,
Unknown
Triticum monococcum
(species)
Domesticated
Linkage Mapping
Yan L; Loukoianov A; Tranquilli G ; et al. (2003)
Positional cloning of the wheat vernalization gene VRN1.
GP00001185
VRN1
Q8L3W1
Physiology
Not identified
Triticum monococcum
(species)
Triticum monococcum
(species)
VRN1
Triticum monococcum
(species)
Published - Accepted by Curator
VRN1
Flowering time
Cis-regulatory,
Insertion
Triticum turgidum
(species) D
Domesticated
Linkage Mapping
Chu CG; Tan CT; Yu GT ; et al. (2011)
A Novel Retrotransposon Inserted in the Dominant Vrn-B1 Allele Confers Spring Growth Habit in Tetrap[...]
GP00002105
VRN1
Q8L3W1
Physiology
5463-bp insertion in the 5'-UTR region of the Vrn-B1 allele. This insertion is a novel retrotransposon (designated as retrotrans_VRN), which is flanked by a 5-bp target site duplication and contains primer binding site and polypurine tract motifs; a 325-bp long terminal repeat and an open reading frame encoding 1231 amino acids. The insertion of retrotrans_VRN results in expression of Vrn-B1 without vernalization.
Triticum turgidum
(species)
Triticum turgidum
(species) D
VRN1
Triticum turgidum
(species)
Published - Accepted by Curator
VRN2
Flowering time
Gene Loss,
Deletion
N
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Yan L; Loukoianov A; Blechl A ; et al. (2004)
The wheat VRN2 gene is a flowering repressor down-regulated by vernalization.
GP00001186
VRN2
Q8W5B1
Physiology
Large deletion N
Hordeum vulgare
(species)
Hordeum vulgare
(species)
VRN2
Hordeum vulgare
(species)
Published - Accepted by Curator
VRN2
Flowering time
Coding,
SNP
Triticum monococcum
(species)
Domesticated
Linkage Mapping
Yan L; Loukoianov A; Blechl A ; et al. (2004)
The wheat VRN2 gene is a flowering repressor down-regulated by vernalization.
GP00001187
VRN2
Q8W5B1
Physiology
R35W; R is conserved in all of the ZCCT proteins and in all of the CO-like proteins from Arabidopsis; rice; and barley
Triticum monococcum
(species)
Triticum monococcum
(species)
VRN2
Triticum monococcum
(species)
Published - Accepted by Curator
VRS1 = SIX-ROWED SPIKE 1
Plant architecture
Inflorescence architecture
Coding,
Deletion
N
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Komatsuda T; Pourkheirandish M; He C ; et al. (2007)
Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene.
1 Additional References
GP00001189
Vrs1
A1IHK8
Morphology
Morphology
1bp deletion resulting in frameshift N
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
VRS1 = SIX-ROWED SPIKE 1
Hordeum vulgare
(species)
Published - Accepted by Curator
VRS1 = SIX-ROWED SPIKE 1
Plant architecture
Inflorescence architecture
Coding,
Insertion
N
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Komatsuda T; Pourkheirandish M; He C ; et al. (2007)
Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene.
1 Additional References
GP00001190
Vrs1
A1IHK8
Morphology
Morphology
1bp insertion resulting in frameshift N
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
VRS1 = SIX-ROWED SPIKE 1
Hordeum vulgare
(species)
Published - Accepted by Curator
VRS1 = SIX-ROWED SPIKE 1
Plant architecture
Inflorescence architecture
Coding,
SNP
Hordeum vulgare
(species)
Domesticated
Linkage Mapping
Komatsuda T; Pourkheirandish M; He C ; et al. (2007)
Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene.
1 Additional References
GP00001191
Vrs1
A1IHK8
Morphology
Morphology
Phe75Leu
Hordeum vulgare
(species)
Hordeum vulgare
(species)
VRS1 = SIX-ROWED SPIKE 1
Hordeum vulgare
(species)
Published - Accepted by Curator
VTE3(1)
Vitamin-E synthesis
Cis-regulatory,
Epigenetic Change
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Quadrana L; Almeida J; Asís R ; et al. (2014)
Natural occurring epialleles determine vitamin E accumulation in tomato fruits.
GP00001684
VTE3
Q9LY74
Physiology
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species)
VTE3(1)
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
VvMYBA1
Coloration (fruit)
Unknown,
Unknown
Vitis vinifera
wine grape - (species)
Domesticated
Linkage Mapping
Fournier-Level A; Le Cunff L; Gomez C ; et al. (2009)
Quantitative genetic bases of anthocyanin variation in grape (Vitis vinifera L. ssp. sativa) berry: [...]
GP00001193
VvmybA1
Q6L973
Morphology
Gret1 insertion polymorphism + R188S + Q213P
Vitis vinifera
wine grape - (species)
Vitis vinifera
wine grape - (species)
VvMYBA1
Vitis vinifera
wine grape - (species)
Published - Accepted by Curator
VvMYBA2
Coloration (fruit)
2 Mutations:
Coding
N
Vitis vinifera
wine grape - (species) D
Domesticated
Linkage Mapping
Fournier-Level A; Le Cunff L; Gomez C ; et al. (2009)
Quantitative genetic bases of anthocyanin variation in grape (Vitis vinifera L. ssp. sativa) berry: [...]
GP00001195
VvmybA2
Q6L9M8
Morphology
2 mutations
Vitis vinifera
wine grape - (species)
Vitis vinifera
wine grape - (species) D
VvMYBA2
Vitis vinifera
wine grape - (species)
Published - Accepted by Curator
VvMYBA3
Coloration (fruit)
Cis-regulatory,
SNP
Vitis vinifera
wine grape - (species)
Domesticated
Linkage Mapping
Fournier-Level A; Le Cunff L; Gomez C ; et al. (2009)
Quantitative genetic bases of anthocyanin variation in grape (Vitis vinifera L. ssp. sativa) berry: [...]
GP00001196
VvmybA3
Q6L9M7
Morphology
Substitution in promoter
Vitis vinifera
wine grape - (species)
Vitis vinifera
wine grape - (species)
VvMYBA3
Vitis vinifera
wine grape - (species)
Published - Accepted by Curator
Waxy /GBSS
Amylose content
Cis-regulatory,
Deletion
Hordeum vulgare
(species) D
Domesticated
Linkage Mapping
Domon E; Fuijita M; Ishikawa N (2002)
The insertion/deletion polymorphisms in the waxy gene of barley genetic resources from East Asia.
GP00001197
waxy
Q8L699
Physiology
403-bp deletion spanning from position –129 bp to position +274 relative to the deduced starting point of transcription in the barley waxy gene and
Hordeum vulgare
(species)
Hordeum vulgare
(species) D
Waxy /GBSS
Hordeum vulgare
(species)
Published - Accepted by Curator
Waxy /GBSS
Amylose content
Cis-regulatory,
Insertion
Setaria italica
foxtail millet - (species) D
Domesticated
Linkage Mapping
Kawase M; Fukunaga K; Kato K (2005)
Diverse origins of waxy foxtail millet crops in East and Southeast Asia mediated by multiple transpo[...]
GP00001199
waxy
Q8L699
Physiology
Transposon insertion TSI-2 (intron 1)
Setaria italica
foxtail millet - (species)
Setaria italica
foxtail millet - (species) D
Waxy /GBSS
Setaria italica
foxtail millet - (species)
Published - Accepted by Curator
Waxy /GBSS
Amylose content (glutinous rice)
Coding,
SNP
Oryza sativa
rice - (species)
Domesticated
Linkage Mapping
Wang ZY; Zheng FQ; Shen GZ ; et al. (1995)
The amylose content in rice endosperm is related to the post-transcriptional regulation of the waxy [...]
3 Additional References
GP00001204
waxy
Q8L699
Physiology
substitution G->T in the 5' splice site of intron 1
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Waxy /GBSS
Oryza sativa
rice - (species)
Published - Accepted by Curator
Wnt1
Coloration (larval color pattern)
Cis-regulatory,
Complex Change
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Yamaguchi J; Banno Y; Mita K ; et al. (2013)
Periodic Wnt1 expression in response to ecdysteroid generates twin-spot markings on caterpillars.
2 Additional References
GP00001385
wg
P09615
Morphology
Fine-resolution mapping of a 34kb regulatory region driving Ecdysteroid-dependent Wnt gain-of-function. The L-specific structural variations upstream of Wnt1-1 may cause its ectopic expression in the spot marking region of the epidermis, resulting in the L phenotype.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Wnt1
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius hecale
(species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001206
WntA
A0A077DF90
Morphology
unknown
Heliconius hecale
(species)
Heliconius hecale
(species)
WntA
Heliconius hecale
(species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius ismenius
(species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001207
WntA
A0A077DF90
Morphology
unknown
Heliconius ismenius
(species)
Heliconius ismenius
(species)
WntA
Heliconius ismenius
(species)
Published - Accepted by Curator
WntA
Coloration (wing; Batesian mimicry)
Cis-regulatory,
Unknown
Limenitis arthemis
white admiral - (species)
Intraspecific
Linkage Mapping
Gallant JR; Imhoff VE; Martin A ; et al. (2014)
Ancient homology underlies adaptive mimetic diversity across butterflies.
GP00001208
WntA
A0A077DF90
Morphology
Complex Haplotype in first intron perfectly associated with phenotype: 173 fixed single-nucleotide polymorphisms (SNPs) in complete linkage disequilibrium (LD) located 23
Limenitis arthemis
white admiral - (species)
Limenitis arthemis
white admiral - (species)
WntA
Limenitis arthemis
white admiral - (species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Indel
Heliconius cydno
(species)
Intraspecific
Linkage Mapping
Gallant JR; Imhoff VE; Martin A ; et al. (2014)
Ancient homology underlies adaptive mimetic diversity across butterflies.
1 Additional References
GP00001209
WntA
A0A077DF90
Morphology
1.8-kb indel that was perfectly associated with variation in forewing melanin patterning
Heliconius cydno
(species)
Heliconius cydno
(species)
WntA
Heliconius cydno
(species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius pachinus
(species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
1 Additional References
GP00001210
WntA
A0A077DF90
Morphology
Complex cis-regulatory haplotype : 170 fixed differences were detected among comparisons of allopatric H. c. galanthus and H. pachinus
Heliconius cydno
(species)
Heliconius pachinus
(species)
WntA
Heliconius pachinus
(species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius erato
crimson-patched longwing - (species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001211
WntA
A0A077DF90
Morphology
Not identified
Heliconius himera
(species)
Heliconius erato
crimson-patched longwing - (species)
WntA
Heliconius erato
crimson-patched longwing - (species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius erato
crimson-patched longwing - (species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001212
WntA
A0A077DF90
Morphology
Not identified
Heliconius himera
(species)
Heliconius erato
crimson-patched longwing - (species)
WntA
Heliconius erato
crimson-patched longwing - (species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius erato
crimson-patched longwing - (species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001213
WntA
A0A077DF90
Morphology
Not identified
Heliconius himera
(species)
Heliconius erato
crimson-patched longwing - (species)
WntA
Heliconius erato
crimson-patched longwing - (species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius melpomene
postman butterfly - (species)
Intraspecific
Linkage Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001214
WntA
A0A077DF90
Morphology
unknown ; non-coding with effect on spatial gene expression
Heliconius melpomene
postman butterfly - (species)
Heliconius melpomene
postman butterfly - (species)
WntA
Heliconius melpomene
postman butterfly - (species)
Published - Accepted by Curator
WRR4
Pathogen resistance
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Borhan MH; Gunn N; Cooper A ; et al. (2008)
WRR4 encodes a TIR-NB-LRR protein that confers broad-spectrum white rust resistance in Arabidopsis t[...]
GP00001215
ADR2
Q9C7X0
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
WRR4
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Xa1
Pathogen resistance
Unknown,
Unknown
Oryza sativa
rice - (species)
Intraspecific
Linkage Mapping
Yoshimura S; Yamanouchi U; Katayose Y ; et al. (1998)
Expression of Xa1, a bacterial blight-resistance gene in rice, is induced by bacterial inoculation.
GP00001216
XA1
A0A0H5AGW3
Physiology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Xa1
Oryza sativa
rice - (species)
Published - Accepted by Curator
Xa21
Pathogen resistance
Coding,
Unknown
Oryza sativa
rice - (species)
Intraspecific
Linkage Mapping
Song WY; Wang GL; Chen LL ; et al. (1995)
A receptor kinase-like protein encoded by the rice disease resistance gene, Xa21.
GP00001217
Xa21
A0PIA3
Physiology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Xa21
Oryza sativa
rice - (species)
Published - Accepted by Curator
Xa26
Pathogen resistance
Coding,
Unknown
Oryza sativa
rice - (species)
Intraspecific
Linkage Mapping
Sun X; Cao Y; Yang Z ; et al. (2004)
Xa26, a gene conferring resistance to Xanthomonas oryzae pv. oryzae in rice, encodes an LRR receptor[...]
GP00001218
Xa26
Q00KZ8
Physiology
unknown
Oryza sativa
rice - (species)
Oryza sativa
rice - (species)
Xa26
Oryza sativa
rice - (species)
Published - Accepted by Curator
Xmrk
Hybrid incompatibility (melanoma)
Unknown,
Unknown
Xiphophorus hellerii
green swordtail - (species)
Interspecific
Linkage Mapping
Adam D; Dimitrijevic N; Schartl M (1993)
Tumor suppression in Xiphophorus by an accidentally acquired promoter.
1 Additional References
GP00001219
xmrk
P13388
Physiology
Various
Xiphophorus maculatus
southern platyfish - (species)
Xiphophorus hellerii
green swordtail - (species)
Xmrk
Xiphophorus hellerii
green swordtail - (species)
Published - Accepted by Curator
yellow
Coloration (male-specific)
Unknown,
Unknown
Drosophila merina
(species)
Interspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001550
y
P09957
Morphology
unknown
Drosophila ercepeae
(species)
Drosophila merina
(species)
yellow
Drosophila merina
(species)
Published - Accepted by Curator
yellow
Coloration (male-specific)
Unknown,
Unknown
Drosophila bipectinata
(species)
Interspecific
Linkage Mapping
Signor SA; Liu Y; Rebeiz M ; et al. (2016)
Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.
GP00001551
y
P09957
Morphology
unknown
Drosophila malerkotliana
(species)
Drosophila bipectinata
(species)
yellow
Drosophila bipectinata
(species)
Published - Accepted by Curator
yellow
Coloration (abdomen; male)
Cis-regulatory,
Unknown
Drosophila santomea
(species) D
Interspecific
Linkage Mapping
Liu Y; Ramos-Womack M; Han C ; et al. (2019)
Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution.
GP00002023
y
P09957
Morphology
change in a cis-regulatory region - exact causing mutation(s) unknown - decreased yellow abdominal expression associated with lighter color
Drosophila yakuba
(species)
Drosophila santomea
(species) D
yellow
Drosophila santomea
(species)
Published - Accepted by Curator
zeb1a
Coloration (fish fins)
Cis-regulatory,
SNP
Tropheops sp. 'red cheek'
(species)
Interspecific
Linkage Mapping
Albertson RC; Powder KE; Hu Y ; et al. (2014)
Genetic basis of continuous variation in the levels and modular inheritance of pigmentation in cichl[...]
GP00001418
zeb1a
F1QMZ5
Morphology
intronic SNP
Labeotropheus fuelleborni
blue mbuna - (species)
Tropheops sp. 'red cheek'
(species)
zeb1a
Tropheops sp. 'red cheek'
(species)
Published - Accepted by Curator
zfl2
Flowering time
Coding,
Deletion
Zea mays
(species) D
Domesticated
Linkage Mapping
Buckler ES; Holland JB; Bradbury PJ ; et al. (2009)
The genetic architecture of maize flowering time.
GP00001226
zfl2
Q5Q1L6
Physiology
16a.a. deletion
Zea mays
(species)
Zea mays
(species) D
zfl2
Zea mays
(species)
Published - Accepted by Curator
zic1/zic4
Fin morphology (skeleton; dorsal fin; caudal fin)
Pigmentation (ventralized trunk)
Cis-regulatory,
Insertion
Oryzias latipes
Japanese medaka - (species) D
Intraspecific
Linkage Mapping
Moriyama Y; Kawanishi T; Nakamura R ; et al. (2012)
The medaka zic1/zic4 mutant provides molecular insights into teleost caudal fin evolution.
1 Additional References
GP00002038
Zic1
P46684
Morphology
Morphology
The mutant phenotype is caused by a dramatic decrease of zic1/zic4 expression in the dorsal somites. The insertion of a transposon (“Albatross”) into an enhancer region (downstream of zic4) of the transcription factors zic1 and zic4 causes this phenotype. Both genes are expressed by a bi-directional promoter. The transposon insertion is proposed to interfere with the transcriptional regulation of zic1/zic4; resulting in the disturbance of the expression of the transcription factors in the dorsal somites (the expression of zic1/zic4 in other parts of the body is not affected in this mutant) and ultimately causing a ventralized trunk phenotype. In Inoue et al. (2017) it was shown that the transposon “Albatross” is actually larger than originally predicted; and is now called “Teratorn”. Teratorn is around 180kb long and appears to originate from the fusion of a DNA transposon and a herpesvirus.
Oryzias latipes
Japanese medaka - (species)
Oryzias latipes
Japanese medaka - (species) D
zic1/zic4
Oryzias latipes
Japanese medaka - (species)
Published - Accepted by Curator
zic1/zic4
Fin morphology (skeleton; caudal fin)
Cis-regulatory,
Deletion
Betta splendens
Siamese fighting fish - (species) D
Domesticated
Linkage Mapping
Wang L; Sun F; Wan ZY ; et al. (2021)
Genomic Basis of Striking Fin Shapes and Colors in the Fighting Fish.
GP00002385
Zic1
P46684
Morphology
"We further sequenced the genomes of both homozygous single- and double-tail fish and found in double tail no large sequence variation except for a ∼180-bp deletion ∼15-kb downstream of zic4 (fig. 4C and supplementary fig. S19a, Supplementary Material online). This deletion was located in a cluster of CNEs and coincided with predicted CNE.006008 (supplementary fig. S19b, Supplementary Material online)."
"We observed that the wild-type ST allele significantly enhanced green fluorescent protein (GFP) expression in embryos at 24 hpf, when both zic1 and zic4 show differential expression between double-tail and wild-type fish (Moriyama et al. 2012), whereas no visible GFP expression was detected for the st allele (fig. 4E and supplementary table S11, Supplementary Material online). The efficiency of the two alleles as candidate enhancers was further examined using a Dual-Luciferase Reporter Assay, which showed that the ST allele enhanced luciferase expression by ∼10× relative to st allele in Singapore grouper embryonic cell line (fig. 4F)."
"Finally, we deleted this enhancer using the CRISPR-Cas9 system in fighting fish. Considering the efficiency of tested gRNAs and the cluster of CNEs that could have unpredicted functions, we limited the modification to the CNE.006008 region and did not involve the other CNEs (supplementary fig. S20, Supplementary Material online). Genetic analysis revealed that none of these fish had completely deleted CNE.006008, suggesting nonsimultaneous cutting at multiple targeted gRNA positions. These mosaic fish (n = 7) had significantly more fin rays than the noninjected controls (P < 0.01; fig. 4G). "
Betta splendens
Siamese fighting fish - (species)
Betta splendens
Siamese fighting fish - (species) D
zic1/zic4
Betta splendens
Siamese fighting fish - (species)
Published - Accepted by Curator
ZmCCT
Flowering time
Cis-regulatory,
Insertion
Zea mays
(species) D
Domesticated
Linkage Mapping
Ducrocq S; Giauffret C; Madur D ; et al. (2009)
Fine mapping and haplotype structure analysis of a major flowering time quantitative trait locus on [...]
2 Additional References
GP00001227
GHD7
E5RQA1
Physiology
insertion of a CACTA-like transposon into the promoter of ZmCCT. This insertion suppresses ZmCCT expression through methylation and reduces maize sensitivity to photoperiod.
Zea mays
(species)
Zea mays
(species) D
ZmCCT
Zea mays
(species)
Published - Accepted by Curator
Zmr1
Xenobiotic resistance (fungicide)
Melanin content
2 Mutations:
Cis-regulatory
Zymoseptoria tritici
(species)
Intraspecific
Linkage Mapping
Krishnan P; Meile L; Plissonneau C ; et al. (2018)
Transposable element insertions shape gene regulation and melanin production in a fungal pathogen of[...]
GP00001715
CMR1
Q06F33
Physiology
Physiology
2 mutations
Zymoseptoria tritici
(species)
Zymoseptoria tritici
(species)
Zmr1
Zymoseptoria tritici
(species)
Published - Accepted by Curator
Zygotic hybrid rescue
F1 lethality (female-limited)
Unknown,
Unknown
Drosophila simulans
(species)
Interspecific
Linkage Mapping
Ferree PM; Barbash DA (2009)
Species-specific heterochromatin prevents mitotic chromosome segregation to cause hybrid lethality i[...]
GP00001228
Physiology
Heterochromatin incompatibilitity
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Zygotic hybrid rescue
Drosophila simulans
(species)
Published - Accepted by Curator