18-wheeler
Pathogen resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Lazzaro BP; Sackton TB; Clark AG (2006)
Genetic variation in Drosophila melanogaster resistance to infection: a comparison across bacteria.
GP00000001
18w
A1ZBR2
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
18-wheeler
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
ABC transporter pvmrp1
Xenobiotic resistance (multiresistance to antimalarial drugs)
Unknown,
Unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Intraspecific
Association Mapping
Pearson RD; Amato R; Auburn S ; et al. (2016)
Genomic analysis of local variation and recent evolution in Plasmodium vivax.
GP00001486
PVX_097025
A5KCN4
Physiology
unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Plasmodium vivax
malaria parasite P. vivax - (species)
ABC transporter pvmrp1
Plasmodium vivax
malaria parasite P. vivax - (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
Abcb4
Biliary Phospholipid Level (low)
Coding,
Unknown
N
Cavia porcellus
domestic guinea pig - (species)
Intergeneric or Higher
Association Mapping
Hiller M; Schaar BT; Indjeian VB ; et al. (2012)
A "forward genomics" approach links genotype to phenotype using independent phenotypic losses among [...]
GP00000008
Abcb4
P21440
Physiology
pseudogenization N
Mammalia
mammals - (class)
Cavia porcellus
domestic guinea pig - (species)
Abcb4
Cavia porcellus
domestic guinea pig - (species)
Published - Accepted by Curator
Abcb4
Biliary Phospholipid Level (low)
Coding,
Unknown
N
Equus caballus
horse - (species)
Intergeneric or Higher
Association Mapping
Hiller M; Schaar BT; Indjeian VB ; et al. (2012)
A "forward genomics" approach links genotype to phenotype using independent phenotypic losses among [...]
GP00000009
Abcb4
P21440
Physiology
pseudogenization N
Mammalia
mammals - (class)
Equus caballus
horse - (species)
Abcb4
Equus caballus
horse - (species)
Published - Accepted by Curator
ABCB7
Iron metabolism
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Association Mapping
Jones FC; Chan YF; Schmutz J ; et al. (2012)
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence i[...]
GP00001379
ABCB7
O75027
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
ABCB7
Gasterosteus aculeatus
three-spined stickleback - (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
ABCG2
Milk yield
Unknown,
Unknown
Ovis aries
sheep - (species)
Domesticated
Candidate Gene
García-Fernández M; Gutiérrez-Gil B; Sánchez JP ; et al. (2011)
The role of bovine causal genes underlying dairy traits in Spanish Churra sheep.
GP00000016
Abcg2
Q7TMS5
Physiology
unknown
Ovis aries
sheep - (species)
Ovis aries
sheep - (species)
ABCG2
Ovis aries
sheep - (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
Abdominal-B
Coloration (abdomen; setae)
Cis-regulatory,
Unknown
Bombus melanopygus
(species)
Intraspecific
Association Mapping
Tian L; Rahman SR; Ezray BD ; et al. (2019)
A homeotic shift late in development drives mimetic color variation in a bumble bee.
GP00002048
Abd-B
P09087
Morphology
4kb region - probably several mutations according to recombinants with intermediate phenotypes
Bombus melanopygus
(species)
Bombus melanopygus
(species)
Abdominal-B
Bombus melanopygus
(species)
Published - Accepted by Curator
ABO histo blood group glycosyltransferase
ABO antigen blood type
Coding,
Unknown
Pan troglodytes
chimpanzee - (species)
Intraspecific
Candidate Gene
Kermarrec N; Roubinet F; Apoil PA ; et al. (1999)
Comparison of allele O sequences of the human and non-human primate ABO system.
GP00000023
ABO
P16442
Physiology
Uncertain; possibly 9bp deletion resultin in 3a.a. deletion
Pan troglodytes
chimpanzee - (species)
Pan troglodytes
chimpanzee - (species)
ABO histo blood group glycosyltransferase
Pan troglodytes
chimpanzee - (species)
Published - Accepted by Curator
ABO histo blood group glycosyltransferase
ABO antigen blood type
Unknown,
Unknown
Pan troglodytes
chimpanzee - (species)
Intraspecific
Candidate Gene
Kermarrec N; Roubinet F; Apoil PA ; et al. (1999)
Comparison of allele O sequences of the human and non-human primate ABO system.
GP00000024
ABO
P16442
Physiology
unknown
Pan troglodytes
chimpanzee - (species)
Pan troglodytes
chimpanzee - (species)
ABO histo blood group glycosyltransferase
Pan troglodytes
chimpanzee - (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
achaete-scute complex
Bristle number (thorax)
Cis-regulatory,
Unknown
Drosophila quadrilineata
(species)
Interspecific
Candidate Gene
Marcellini S; Simpson P (2006)
Two or four bristles: functional evolution of an enhancer of scute in Drosophilidae.
GP00000049
sc
P10084
Morphology
Not identified
Drosophila melanogaster
fruit fly - (species)
Drosophila quadrilineata
(species)
achaete-scute complex
Drosophila quadrilineata
(species)
Published - Accepted by Curator
ADAMTS10
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000050
ADAMTS10
Q9H324
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
ADAMTS10
Homo sapiens
human - (species)
Published - Accepted by Curator
AFGP multigene - antifreeze glycoproteins
Anti-freezing
Coding,
Unknown
Dissostichus mawsoni
Antarctic toothfish - (species)
Intergeneric or Higher
Candidate Gene
Chen L; DeVries AL; Cheng CH (1997)
Evolution of antifreeze glycoprotein gene from a trypsinogen gene in Antarctic notothenioid fish.
2 Additional References
GP00000052
afgp8
P24856
Physiology
multiple modifications of a pancreatic; secreted trypsinogen; notably via multiplications of small tri-peptidic repeats
Teleostei
teleost fishes - (infraclass)
Dissostichus mawsoni
Antarctic toothfish - (species)
AFGP multigene - antifreeze glycoproteins
Dissostichus mawsoni
Antarctic toothfish - (species)
Published - Accepted by Curator
AGAMOUS-LIKE 50
Leaf number (at flowering time)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Association Mapping
Seymour DK; Chae E; Grimm DG ; et al. (2016)
Genetic architecture of nonadditive inheritance in Arabidopsis thaliana hybrids.
GP00001450
AGAMOUS-like 50
Q9XIE7
Morphology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AGAMOUS-LIKE 50
Arabidopsis thaliana
thale cress - (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)
5 Mutations:
Peromyscus maniculatus
North American deer mouse - (species)
Intraspecific
Association Mapping
Linnen CR; Poh YP; Peterson BK ; et al. (2013)
Adaptive evolution of multiple traits through multiple mutations at a single gene.
1 Additional References
GP00001974
Asip
Q03288
Morphology
5 mutations
Peromyscus maniculatus
North American deer mouse - (species)
Peromyscus maniculatus
North American deer mouse - (species)
Agouti
Peromyscus maniculatus
North American deer mouse - (species)
Published - Accepted by Curator
Agouti (ASIP)
Coloration (skin; hair)
Cis-regulatory,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Bonilla C; Boxill LA; Donald SA ; et al. (2005)
The 8818G allele of the agouti signaling protein (ASIP) gene is ancestral and is associated with dar[...]
2 Additional References
GP00000070
Asip
Q03288
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Agouti (ASIP)
Homo sapiens
human - (species)
Published - Accepted by Curator
Agouti (ASIP)
Coloration (coat)
Cis-regulatory,
Unknown
Vermivora cyanoptera
blue-winged warbler - (species)
Interspecific
Association Mapping
Toews DP; Taylor SA; Vallender R ; et al. (2016)
Plumage Genes and Little Else Distinguish the Genomes of Hybridizing Warblers.
GP00001331
Asip
Q03288
Morphology
unknown - the divergent region falls in the 5prime region that is directly upstream of the associated coding region
Vermivora chrysoptera
Golden-winged warbler - (species)
Vermivora cyanoptera
blue-winged warbler - (species)
Agouti (ASIP)
Vermivora cyanoptera
blue-winged warbler - (species)
Published - Accepted by Curator
Agouti (ASIP)
Coloration (coat)
Cis-regulatory,
Unknown
Lepus americanus
snowshoe hare - (species) D
Intraspecific
Association Mapping
Jones MR; Mills LS; Alves PC ; et al. (2018)
Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares.
GP00002060
Asip
Q03288
Morphology
exact mutation(s) unknown
Lepus americanus
snowshoe hare - (species)
Lepus americanus
snowshoe hare - (species) D
Agouti (ASIP)
Lepus americanus
snowshoe hare - (species)
Published - Accepted by Curator
Agouti (ASIP)
Coloration (coat)
Cis-regulatory,
Unknown
Lepus timidus
Mountain hare - (species) D
Intraspecific
Association Mapping
Giska I; Farelo L; Pimenta J ; et al. (2019)
Introgression drives repeated evolution of winter coat color polymorphism in hares.
GP00002061
Asip
Q03288
Morphology
exact mutation(s) unknown
Lepus timidus
Mountain hare - (species)
Lepus timidus
Mountain hare - (species) D
Agouti (ASIP)
Lepus timidus
Mountain hare - (species)
Published - Accepted by Curator
Agouti (ASIP)
Coloration (skin)
Cis-regulatory,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Candidate Gene
Yu S; Wang G; Liao J (2019)
Association of a novel SNP in the ASIP gene with skin color in black-bone chicken.
GP00002130
Asip
Q03288
Morphology
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
Agouti (ASIP)
Gallus gallus
chicken - (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
agrecan
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000072
ACAN
P16112
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
agrecan
Homo sapiens
human - (species)
Published - Accepted by Curator
AIP
Xenobiotic resistance (pollution)
Unknown,
Unknown
N
Fundulus heteroclitus
mummichog - (species) D
Intraspecific
Association Mapping
Reid NM; Proestou DA; Clark BW ; et al. (2016)
The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish.
GP00001812
Aip
O08915
Physiology
exact mutation(s) unknown - very good candidate gene according to association mapping and knowledge about the physiology N
Fundulus heteroclitus
mummichog - (species)
Fundulus heteroclitus
mummichog - (species) D
AIP
Fundulus heteroclitus
mummichog - (species)
Published - Accepted by Curator
AIP
Xenobiotic resistance (pollution)
Unknown,
Unknown
N
Fundulus grandis
Gulf killifish - (species) D
Intraspecific
Association Mapping
Oziolor EM; Reid NM; Yair S ; et al. (2019)
Adaptive introgression enables evolutionary rescue from extreme environmental pollution.
GP00002670
Aip
O08915
Physiology
exact mutation(s) unknown - very good candidate gene according to Fst and knowledge about the physiology N
Fundulus grandis
Gulf killifish - (species)
Fundulus grandis
Gulf killifish - (species) D
AIP
Fundulus grandis
Gulf killifish - (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)
4 Mutations:
Drosophila yakuba
(species)
Interspecific
Candidate Gene
Loehlin DW; Ames JR; Vaccaro K ; et al. (2019)
A major role for noncoding regulatory mutations in the evolution of enzyme activity.
GP00001963
Adh
P00334
Physiology
4 mutations
Drosophila santomea
(species)
Drosophila yakuba
(species)
alcohol dehydrogenase (Adh)
Drosophila yakuba
(species)
Published - Accepted by Curator
alcohol dehydrogenase (Adh)
Xenobiotic resistance (alcohol)
4 Mutations:
Drosophila erecta
(species)
Interspecific
Candidate Gene
Loehlin DW; Ames JR; Vaccaro K ; et al. (2019)
A major role for noncoding regulatory mutations in the evolution of enzyme activity.
GP00001964
Adh
P00334
Physiology
4 mutations
Drosophila orena
(species)
Drosophila erecta
(species)
alcohol dehydrogenase (Adh)
Drosophila erecta
(species)
Published - Accepted by Curator
alcohol dehydrogenase (Adh)
Xenobiotic resistance (alcohol)
5 Mutations:
Drosophila virilis
(species) D
Interspecific
Candidate Gene
Loehlin DW; Ames JR; Vaccaro K ; et al. (2019)
A major role for noncoding regulatory mutations in the evolution of enzyme activity.
GP00001965
Adh
P00334
Physiology
5 mutations
Drosophila americana
(species)
Drosophila virilis
(species) D
alcohol dehydrogenase (Adh)
Drosophila virilis
(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
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
ALX1
Beak size
Unknown,
Unknown
Geospiza
(genus) D
Interspecific
Association Mapping
Lamichhaney S; Berglund J; Almén MS ; et al. (2015)
Evolution of Darwin's finches and their beaks revealed by genome sequencing.
1 Additional References
GP00000081
Alx1
Q8C8B0
Morphology
240kb haplotype with complex variation
Geospiza
(genus)
Geospiza
(genus) D
ALX1
Geospiza
(genus)
Published - Accepted by Curator
ameloblastin (AMBN)
Tooth absence (no enamel production)
Coding,
Unknown
N
Mysticeti
baleen whales - (suborder) D
Intergeneric or Higher
Candidate Gene
Deméré TA; McGowen MR; Berta A ; et al. (2008)
Morphological and molecular evidence for a stepwise evolutionary transition from teeth to baleen in [...]
1 Additional References
GP00001938
AMBN
Q9NP70
Physiology
multiple frameshift mutations N
Cetacea
whales - (order)
Mysticeti
baleen whales - (suborder) D
ameloblastin (AMBN)
Mysticeti
baleen whales - (suborder)
Published - Accepted by Curator
amelogenin (AMEL)
Tooth absence (no enamel production)
Coding,
Unknown
N
Mysticeti
baleen whales - (suborder) D
Intergeneric or Higher
Candidate Gene
Meredith RW; Gatesy J; Cheng J ; et al. (2011)
Pseudogenization of the tooth gene enamelysin (MMP20) in the common ancestor of extant baleen whales[...]
GP00001937
Amelx
P63277
Physiology
J. Gatesy 2010 unpublished data cited in the main reference N
Cetacea
whales - (order)
Mysticeti
baleen whales - (suborder) D
amelogenin (AMEL)
Mysticeti
baleen whales - (suborder)
Published - Accepted by Curator
ammonium transporter 2;1
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001431
AMT2
Q9M6N7
Physiology
seven aa substitutions
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
ammonium transporter 2;1
Arabidopsis arenosa
(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
AMPD1 [clinical; candidate gene study; added for insights on fly-human parallelism]
Drug resistance
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Candidate Gene
Wessels JA; van der Kooij SM; le Cessie S ; et al. (2007)
A clinical pharmacogenetic model to predict the efficacy of methotrexate monotherapy in recent-onset[...]
GP00000084
AMPD1
P23109
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
AMPD1 [clinical; candidate gene study; added for insights on fly-human parallelism]
Homo sapiens
human - (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
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
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
ARNT-1c
Xenobiotic resistance (pollution)
Unknown,
Unknown
N
Fundulus grandis
Gulf killifish - (species) D
Intraspecific
Association Mapping
Oziolor EM; Reid NM; Yair S ; et al. (2019)
Adaptive introgression enables evolutionary rescue from extreme environmental pollution.
GP00002672
P27540NULL
Physiology
exact mutation(s) unknown - very good candidate gene according to high differentiation region on chromosome 8 and knowledge about the physiology. ARNT1c is a nuclear dimerization partner of aryl hydrocarbon receptor (AHR) required for activation of the xenobiotic response pathway. N
Fundulus grandis
Gulf killifish - (species)
Fundulus grandis
Gulf killifish - (species) D
ARNT-1c
Fundulus grandis
Gulf killifish - (species)
Published - Accepted by Curator
ARNT-L2a
Xenobiotic resistance (pollution)
Unknown,
Unknown
N
Fundulus grandis
Gulf killifish - (species) D
Intraspecific
Association Mapping
Oziolor EM; Reid NM; Yair S ; et al. (2019)
Adaptive introgression enables evolutionary rescue from extreme environmental pollution.
GP00002671
P27540NULL
Physiology
exact mutation(s) unknown - very good candidate gene according to high differentiation region on chromosome 10 and knowledge about the physiology. ARNT-L2a is a nuclear dimerization partner of aryl hydrocarbon receptor (AHR) required for activation of the xenobiotic response pathway. N
Fundulus grandis
Gulf killifish - (species)
Fundulus grandis
Gulf killifish - (species) D
ARNT-L2a
Fundulus grandis
Gulf killifish - (species)
Published - Accepted by Curator
arrow
Coloration (wing)
Cis-regulatory,
Unknown
Danaus chrysippus
African queen - (species)
Intraspecific
Association Mapping
Martin SH; Singh KS; Gordon IJ ; et al. (2020)
Whole-chromosome hitchhiking driven by a male-killing endosymbiont.
GP00002431
cnn
P54623
Morphology
The strongest associations with forewing tip (C locus) occur at the gene arrow and a phylogenetic network for a 100-kb region around this gene similarly clusters individuals by phenotype. In Drosophila Arrow is essential for Wnt signalling in wing development
Danaus chrysippus
African queen - (species)
Danaus chrysippus
African queen - (species)
arrow
Danaus chrysippus
African queen - (species)
Published - Accepted by Curator
asparagine synthetase (AS)
Silk yield
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xiang H; Liu X; Li M ; et al. (2018)
The evolutionary road from wild moth to domestic silkworm.
1 Additional References
GP00002404
AsnS
Q7KTW9
Physiology
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
asparagine synthetase (AS)
Bombyx mori
domestic silkworm - (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
ATP2B4
Pathogen resistance (Plasmodium; malaria parasite)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Timmann C; Thye T; Vens M ; et al. (2012)
Genome-wide association study indicates two novel resistance loci for severe malaria.
GP00000127
ATP2B4
P23634
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
ATP2B4
Homo sapiens
human - (species)
Published - Accepted by Curator
ATXN1
Body fat distribution (attenuation)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001552
ATXN1
P54253
Physiology
A>G in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
ATXN1
Homo sapiens
human - (species)
Published - Accepted by Curator
avpr1a
Male sexual fidelity (monogamous regime)
Cis-regulatory,
Unknown
Microtus ochrogaster
prairie vole - (species)
Intraspecific
Candidate Gene
Okhovat M; Berrio A; Wallace G ; et al. (2015)
Sexual fidelity trade-offs promote regulatory variation in the prairie vole brain.
1 Additional References
GP00000129
Avpr1a
Q62463
Behavior
unknown
Microtus ochrogaster
prairie vole - (species)
Microtus ochrogaster
prairie vole - (species)
avpr1a
Microtus ochrogaster
prairie vole - (species)
Published - Accepted by Curator
AZI1
Root growth (root growth responses to low zinc conditions)
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Association Mapping
Bouain N; Satbhai SB; Korte A ; et al. (2018)
Natural allelic variation of the AZI1 gene controls root growth under zinc-limiting condition.
GP00001769
AZI1
Q9SU35
Physiology
exact causing mutation(s) unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AZI1
Arabidopsis thaliana
thale cress - (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; female)
Cis-regulatory,
Unknown
Drosophila yakuba
(species)
Interspecific
Candidate Gene
Rogers WA; Salomone JR; Tacy DJ ; et al. (2013)
Recurrent modification of a conserved cis-regulatory element underlies fruit fly pigmentation divers[...]
GP00002008
bab1
Q9W0K7
Morphology
causing mutation(s) unknown. Cis-regulatory element assayed with a GFP reporter in D. melanogaster.
Drosophila melanogaster
fruit fly - (species)
Drosophila yakuba
(species)
bab
Drosophila yakuba
(species)
Published - Accepted by Curator
bab
Coloration (abdomen; female)
Cis-regulatory,
Unknown
Drosophila fuyamai
(species)
Interspecific
Candidate Gene
Rogers WA; Salomone JR; Tacy DJ ; et al. (2013)
Recurrent modification of a conserved cis-regulatory element underlies fruit fly pigmentation divers[...]
GP00002009
bab1
Q9W0K7
Morphology
causing mutation(s) unknown. Cis-regulatory element assayed with a GFP reporter in D. melanogaster.
Drosophila melanogaster
fruit fly - (species)
Drosophila fuyamai
(species)
bab
Drosophila fuyamai
(species)
Published - Accepted by Curator
bab
Coloration (abdomen; female)
Cis-regulatory,
Unknown
Drosophila auraria
(species)
Interspecific
Candidate Gene
Rogers WA; Salomone JR; Tacy DJ ; et al. (2013)
Recurrent modification of a conserved cis-regulatory element underlies fruit fly pigmentation divers[...]
GP00002010
bab1
Q9W0K7
Morphology
causing mutation(s) unknown. Cis-regulatory element assayed with a GFP reporter in D. melanogaster.
Drosophila melanogaster
fruit fly - (species)
Drosophila auraria
(species)
bab
Drosophila auraria
(species)
Published - Accepted by Curator
bab
Insect pheromone attraction
Cis-regulatory,
Unknown
Ostrinia nubilalis
European corn borer - (species)
Intraspecific
Association Mapping
Unbehend M; Kozak GM; Koutroumpa F ; et al. (2021)
bric à brac controls sex pheromone choice by male European corn borer moths.
GP00002424
bab1
Q9W0K7
Behavior; Physiology
A genome-wide association study of pheromone preference under field conditions indicates that preference is controlled by sequence variation within the 293 kb bab intron 1.
Ostrinia nubilalis
European corn borer - (species)
Ostrinia nubilalis
European corn borer - (species)
bab
Ostrinia nubilalis
European corn borer - (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
bab1
Coloration (abdomen)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Interspecific
Candidate Gene
Williams TM; Selegue JE; Werner T ; et al. (2008)
The regulation and evolution of a genetic switch controlling sexually dimorphic traits in Drosophila[...]
GP00000131
bab1
Q9W0K7
Morphology
inter - ABD-B- and DSX- binding site spacing was reduced in regions I, II, and III
gain of ABD-B binding site 13
Drosophila willistoni
(species)
Drosophila melanogaster
fruit fly - (species) D
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
BAK1
Hematopoiesis (blood platelet count)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001616
BAK1
Q16611
Physiology
A>G at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
BAK1
Homo sapiens
human - (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
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
Coloration (coat)
Cis-regulatory,
Unknown
Vermivora cyanoptera
blue-winged warbler - (species)
Interspecific
Association Mapping
Toews DP; Taylor SA; Vallender R ; et al. (2016)
Plumage Genes and Little Else Distinguish the Genomes of Hybridizing Warblers.
GP00001332
BCO2
Q9BYV7
Morphology
unknown - the divergent region falls in the 5prime region that is directly upstream of the associated coding region
Vermivora chrysoptera
Golden-winged warbler - (species)
Vermivora cyanoptera
blue-winged warbler - (species)
BCO2 = beta-carotene oxygenase 2
Vermivora cyanoptera
blue-winged warbler - (species)
Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2
Coloration (ventral scales)
Cis-regulatory,
Unknown
Podarcis muralis
Common wall lizard - (species)
Intraspecific
Association Mapping
Andrade P; Pinho C; Pérez I de Lanuza G ; et al. (2019)
Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall [...]
GP00002120
Bco2
Q99NF1
Morphology
Podarcis muralis
Common wall lizard - (species)
Podarcis muralis
Common wall lizard - (species)
BCO2 = beta-carotene oxygenase 2
Podarcis muralis
Common wall lizard - (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
BCO2 = beta-carotene oxygenase 2
Coloration (beak)
Cis-regulatory,
Unknown
Geospiza scandens
(species) D
Geospiza fortis
medium ground-finch - (species) D
Geospiza conirostris
(species) D
Geospiza magnirostris
(species) D
Geospiza fuliginosa
(species) D
Camarhynchus parvulus
(species) D
Camarhynchus pauper
(species) D
Camarhynchus pallidus
woodpecker finch - (species) D
Geospiza difficilis
(species) D
Intraspecific
Association Mapping
Enbody ED; Sprehn CG; Abzhanov A ; et al. (2021)
A multispecies BCO2 beak color polymorphism in the Darwin's finch radiation.
GP00002384
BCO2
Q9BYV7
Morphology
"By closely inspecting this region in a combined sample of all 456 finches of the two species we identified a single exonic SNP with a likelihood ratio test (LRT) statistic exceeding 166 (Figure 1C). It is also the only consistently elevated SNP in an analysis of each species alone (Figure S1), is the best fit variant under a recessive model (STAR Methods), and occurs on multiple haplotypes (Figure S1C). This SNP (chr24:6,166,878; p6166878 hereafter) leads to a synonymous change 32 bp into exon 4 of BCO2. "
"The functional importance of the observed synonymous change is uncertain, and the presence of an unidentified linked causal variant cannot be completely ruled out (see Conclusions). However, a functional explanation is possible because codon usage can be under strong selection30 and may have functional consequences on translation,30 RNA stability,31 and transcription.32 Notably, p6166878 changes the highest frequency valine codon (ƒGTG = 27.3%) to the lowest (ƒGTA = 7.6%) in the reference genome. This is in line with the observed phenotypic effect of the yellow mutation because a lower abundance codon is expected to be associated with lower protein expression.33 In this case, less BCO2 activity results in more carotenoid deposition in the yellow morph. In fact, we found that yellow homozygotes showed significantly lower BCO2 expression compared to pink homozygotes in the upper beak of developing embryos (Figure 1F) that were sourced from a variety of different species and islands (Table S1): small sample sizes prohibit species-specific analysis. Among the six heterozygous individuals, the pink allele was expressed more than the yellow allele in five samples tested using a droplet-digital PCR (Figure S2C). Differences in expression between the two alleles, and in the absence of alternative splice variants (STAR Methods), raise the possibility that the synonymous change alters transcription factor binding affinity in exon 4. Further research into tissue-specific expression and the specific transcription factors that regulate BCO2 is warranted."
Geospiza scandens
(species)
Geospiza fortis
medium ground-finch - (species)
Geospiza conirostris
(species)
Geospiza magnirostris
(species)
Geospiza fuliginosa
(species)
Camarhynchus parvulus
(species)
Camarhynchus pauper
(species)
Camarhynchus pallidus
woodpecker finch - (species)
Geospiza difficilis
(species)
Geospiza scandens
(species) D
Geospiza fortis
medium ground-finch - (species) D
Geospiza conirostris
(species) D
Geospiza magnirostris
(species) D
Geospiza fuliginosa
(species) D
Camarhynchus parvulus
(species) D
Camarhynchus pauper
(species) D
Camarhynchus pallidus
woodpecker finch - (species) D
Geospiza difficilis
(species) D
BCO2 = beta-carotene oxygenase 2
Geospiza scandens
(species)
Geospiza fortis
medium ground-finch - (species)
Geospiza conirostris
(species)
Geospiza magnirostris
(species)
Geospiza fuliginosa
(species)
Camarhynchus parvulus
(species)
Camarhynchus pauper
(species)
Camarhynchus pallidus
woodpecker finch - (species)
Geospiza difficilis
(species)
Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2
Coloration (feather)
Unknown,
Unknown
Setophaga petechia
yellow warbler - (species) D
Interspecific
Association Mapping
Baiz MD; Wood AW; Brelsford A ; et al. (2021)
Pigmentation Genes Show Evidence of Repeated Divergence and Multiple Bouts of Introgression in Setop[...]
GP00002387
BCO2
Q9BYV7
Morphology
Setophaga pensylvanica
Chestnut-sided warbler - (species)
Setophaga petechia
yellow warbler - (species) D
BCO2 = beta-carotene oxygenase 2
Setophaga petechia
yellow warbler - (species)
Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2
Coloration (feather)
Unknown,
Unknown
Setophaga citrina
hooded warbler - (species) D
Interspecific
Association Mapping
Baiz MD; Wood AW; Brelsford A ; et al. (2021)
Pigmentation Genes Show Evidence of Repeated Divergence and Multiple Bouts of Introgression in Setop[...]
GP00002388
BCO2
Q9BYV7
Morphology
Setophaga ruticilla
(species)
Setophaga citrina
hooded warbler - (species) D
BCO2 = beta-carotene oxygenase 2
Setophaga citrina
hooded warbler - (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-tubulin (ben-1)
Xenobiotic resistance (benzimidazole)
Coding,
Unknown
N
Caenorhabditis elegans
(species) D
Intraspecific
Association Mapping
Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018)
Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]
GP00001850
TUB2
P02557
Physiology
Del_3540369_3540369 and missense_variant_c.206A>G_3540373 E69G - the amino acid substitution (E69G) co-occurs with a deletion in exon 2 that is predicted to cause a frameshift in the ben-1 open reading frame – not sure which mutation or both are responsible for the phenotype N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
beta-tubulin (ben-1)
Caenorhabditis elegans
(species)
Published - Accepted by Curator
BHLHE41
Hypoxia response
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Huerta-Sánchez E; Degiorgio M; Pagani L ; et al. (2013)
Genetic signatures reveal high-altitude adaptation in a set of ethiopian populations.
GP00000144
BHLHE41
Q9C0J9
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
BHLHE41
Homo sapiens
human - (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
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
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
calmodulin binding hydrolase
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001438
Q9FHQ0
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
calmodulin binding hydrolase
Arabidopsis arenosa
(species)
Published - Accepted by Curator
Camta3
Plant size (height)
Unknown,
Unknown
Zea mays
(species)
Intraspecific
Association Mapping
Peiffer JA; Romay MC; Gore MA ; et al. (2014)
The genetic architecture of maize height.
GP00001629
CAMTA3
Q8GSA7
Morphology
C>T transition on chromosome 3
Zea mays
(species)
Zea mays
(species)
Camta3
Zea mays
(species)
Published - Accepted by Curator
Casparian strip membrane domain protein 1
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001432
CASP1
Q9SIH4
Physiology
five aa sustitutions
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
Casparian strip membrane domain protein 1
Arabidopsis arenosa
(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
ccdc170
Coloration
Unknown,
Unknown
Anolis sagrei
Brown anole - (species)
Intraspecific
Association Mapping
Feiner N; Brun-Usan M; Andrade P ; et al. (2022)
A single locus regulates a female-limited color pattern polymorphism in a reptile.
GP00002363
Ccdc170
D3YXL0
Morphology
Anolis sagrei
Brown anole - (species)
Anolis sagrei
Brown anole - (species)
ccdc170
Anolis sagrei
Brown anole - (species)
Published - Accepted by Curator
CEP55
Recombination rate (female)
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001667
CEP55
E1B8M0
Physiology
Associated SNP located near the gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
CEP55
Bos taurus
cattle - (species)
Published - Accepted by Curator
CG8492
Pathogen resistance (Drosophila C virus & flock house virus)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Experimental Evolution
Association Mapping
Martins NE; Faria VG; Nolte V ; et al. (2014)
Host adaptation to viruses relies on few genes with different cross-resistance properties.
GP00001481
Dmel\CG8492
Q9VSA5
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
CG8492
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Chit beta-GlcNAcase
Silk fineness
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Tong X; Han MJ; Lu K ; et al. (2022)
High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecologic[...]
GP00002401
P49010
Physiology
BmChit β-GlcNAcase gene is expressed at a significantly higher level in fine silk strains (Suxiu, Chunfeng) compared to coarse silk strains. CRISPR-cas9 mediated knockout of the BmChit β-GlcNAcase gene produced coarser silk.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Chit beta-GlcNAcase
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
CHRNA3/5 nicotine receptor cluster
Aging
Smoking behavior
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Joshi PK; Fischer K; Schraut KE ; et al. (2016)
Variants near CHRNA3/5 and APOE have age- and sex-related effects on human lifespan.
GP00000185
CHRNA3
P32297
Physiology
Physiology
unknown; complex variation with SNP association signal
Homo sapiens
human - (species)
Homo sapiens
human - (species)
CHRNA3/5 nicotine receptor cluster
Homo sapiens
human - (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
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
CIS1
Xenobiotic resistance (citrinin)
Cis-regulatory,
Unknown
Saccharomyces paradoxus
(species) D
Domesticated
Association Mapping
Naranjo S; Smith JD; Artieri CG ; et al. (2015)
Dissecting the Genetic Basis of a Complex cis-Regulatory Adaptation.
GP00001313
ATG31
Q12421
Physiology
mutations within 1kb in promotor region
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces paradoxus
(species) D
CIS1
Saccharomyces paradoxus
(species)
Published - Accepted by Curator
CLH1
Xenobiotic resistance (fungicide: guazatine)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Association Mapping
Atanasov KE; Barboza-Barquero L; Tiburcio AF ; et al. (2016)
Genome Wide Association Mapping for the Tolerance to the Polyamine Oxidase Inhibitor Guazatine in Ar[...]
GP00001234
CLH1
O22527
Physiology
unknown
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
CLH1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Clock
Circadian rhythm
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xiang H; Liu X; Li M ; et al. (2018)
The evolutionary road from wild moth to domestic silkworm.
1 Additional References
GP00002409
Clk
O61735
Physiology
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Clock
Bombyx mori
domestic silkworm - (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
cortex
Coloration (wing ; leaf mimicry ; camouflage)
Cis-regulatory,
Unknown
Kallima inachus
orange oakleaf - (species) D
Intraspecific
Association Mapping
Wang S; Teng D; Li X ; et al. (2022)
The evolution and diversification of oakleaf butterflies.
GP00002414
cort
Q960N3
Morphology
Kallima inachus
orange oakleaf - (species)
Kallima inachus
orange oakleaf - (species) D
cortex
Kallima inachus
orange oakleaf - (species)
Published - Accepted by Curator
cortex
Coloration (wing ; leaf mimicry ; camouflage)
Cis-regulatory,
Unknown
Kallima inachus
orange oakleaf - (species) D
Intraspecific
Association Mapping
Wang S; Teng D; Li X ; et al. (2022)
The evolution and diversification of oakleaf butterflies.
GP00002415
cort
Q960N3
Morphology
Kallima inachus
orange oakleaf - (species)
Kallima inachus
orange oakleaf - (species) D
cortex
Kallima inachus
orange oakleaf - (species)
Published - Accepted by Curator
cortex
Coloration (wing ; leaf mimicry ; camouflage)
Cis-regulatory,
Unknown
Kallima inachus
orange oakleaf - (species) D
Intraspecific
Association Mapping
Wang S; Teng D; Li X ; et al. (2022)
The evolution and diversification of oakleaf butterflies.
GP00002416
cort
Q960N3
Morphology
Large inversion and many mutations in the large inverted region.
Kallima inachus
orange oakleaf - (species)
Kallima inachus
orange oakleaf - (species) D
cortex
Kallima inachus
orange oakleaf - (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
cortex
Coloration (wing; mimicry)
Unknown,
Unknown
Papilio clytia
common mime swallowtail - (species)
Intraspecific
Association Mapping
VanKuren NW; Massardo D; Nallu S ; et al. (2019)
Butterfly Mimicry Polymorphisms Highlight Phylogenetic Limits of Gene Reuse in the Evolution of Dive[...]
GP00002419
cort
Q960N3
Morphology
Mapping to a 500-kb region that contains the cortex gene
Papilio clytia
common mime swallowtail - (species)
Papilio clytia
common mime swallowtail - (species)
cortex
Papilio clytia
common mime swallowtail - (species)
Published - Accepted by Curator
cortex
Coloration (wing; seasonal)
Cis-regulatory,
Unknown
Junonia coenia
buckeye - (species) D
Experimental Evolution
Association Mapping
van der Burg KRL; Lewis JJ; Brack BJ ; et al. (2020)
Genomic architecture of a genetically assimilated seasonal color pattern.
GP00002420
cort
Q960N3
Morphology
No variation in coding region. Strong association with cis-regulatory SNP.
Junonia coenia
buckeye - (species)
Junonia coenia
buckeye - (species) D
cortex
Junonia coenia
buckeye - (species)
Published - Accepted by Curator
CPLX1
Recombination rate
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001659
CPLX1
Q0IIL7
Physiology
On chromosome 6. Associated SNP in the intron of the gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
CPLX1
Bos taurus
cattle - (species)
Published - Accepted by Curator
Cryptochrome 2 (CRY2)
Circadian rhythm
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xiang H; Liu X; Li M ; et al. (2018)
The evolutionary road from wild moth to domestic silkworm.
1 Additional References
GP00002408
cry
O77059
Physiology
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Cryptochrome 2 (CRY2)
Bombyx mori
domestic silkworm - (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
csf1a
Coloration (loss of stripes)
Cis-regulatory,
Unknown
Danio albolineatus
pearl danio - (species) D
Interspecific
Candidate Gene
Patterson LB; Bain EJ; Parichy DM (2014)
Pigment cell interactions and differential xanthophore recruitment underlying zebrafish stripe reite[...]
GP00002123
csf1a
A0A0B5JQ49
Morphology
Danio rerio
zebrafish - (species)
Danio albolineatus
pearl danio - (species) D
csf1a
Danio albolineatus
pearl danio - (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
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
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
CYP6AY1
Xenobiotic resistance (imidacloprid; buprofezin)
Cis-regulatory,
Unknown
Nilaparvata lugens
brown planthopper - (species) D
Intraspecific
Candidate Gene
Pang R; Li Y; Dong Y ; et al. (2014)
Identification of promoter polymorphisms in the cytochrome P450 CYP6AY1 linked with insecticide resi[...]
GP00002399
CYP6AY1
A0A1L1VFS3
Physiology
CYP6AY1 is expressed at a higher level in a field-collected BPH strain that is highly resistant to both imidacloprid and buprofezin. Polymorphism in the promoter region associated with various levels of resistance.
Nilaparvata lugens
brown planthopper - (species)
Nilaparvata lugens
brown planthopper - (species) D
CYP6AY1
Nilaparvata lugens
brown planthopper - (species)
Published - Accepted by Curator
CYP6BG1
Xenobiotic resistance (insecticide)
Cis-regulatory,
Unknown
Plutella xylostella
diamondback moth - (species) D
Intraspecific
Candidate Gene
Li X; Shan C; Li F ; et al. (2019)
Transcription factor FTZ-F1 and cis-acting elements mediate expression of CYP6BG1 conferring resista[...]
1 Additional References
GP00002064
CYP6BG1
A0A222NX20
Physiology
promoters tested in luciferase assays
Plutella xylostella
diamondback moth - (species)
Plutella xylostella
diamondback moth - (species) D
CYP6BG1
Plutella xylostella
diamondback moth - (species)
Published - Accepted by Curator
CYP6ER1
Xenobiotic resistance (insecticide; imidacloprid)
Cis-regulatory,
Unknown
Nilaparvata lugens
brown planthopper - (species) D
Intraspecific
Candidate Gene
Zimmer CT; Garrood WT; Singh KS ; et al. (2018)
Neofunctionalization of Duplicated P450 Genes Drives the Evolution of Insecticide Resistance in the [...]
GP00002475
cyp6er1
A0A2I8B6P1
Physiology
A significant (up to 9.5-fold) increase in expression driven by the promoter of CYP6ER1vA was observed in comparison to all other promoter variants. This suggests that cis-acting elements in the region upstream of CYP6ER1vA are responsible for the high expression of this variant in BPH populations across Southeast Asia.
Nilaparvata lugens
brown planthopper - (species)
Nilaparvata lugens
brown planthopper - (species) D
CYP6ER1
Nilaparvata lugens
brown planthopper - (species)
Published - Accepted by Curator
CYP6FU1
Xenobiotic resistance (insecticide; deltamethrin)
Cis-regulatory,
Unknown
Laodelphax striatellus
small brown planthopper - (species) D
Intraspecific
Candidate Gene
Pu J; Sun H; Wang J ; et al. (2016)
Multiple cis-acting elements involved in up-regulation of a cytochrome P450 gene conferring resistan[...]
GP00002117
CYP6FU1
A0A1S5R631
Physiology
Four cis-acting elements were identified whose influence on up-regulation was much more pronounced in combination than when present singly.
Laodelphax striatellus
small brown planthopper - (species)
Laodelphax striatellus
small brown planthopper - (species) D
CYP6FU1
Laodelphax striatellus
small brown planthopper - (species)
Published - Accepted by Curator
CYP6P9 cluster (CYP6P9a and CYP6P9b)
Xenobiotic resistance (insecticide)
Cis-regulatory,
Unknown
Anopheles funestus
African malaria mosquito - (species) D
Intraspecific
Candidate Gene
Riveron JM; Irving H; Ndula M ; et al. (2013)
Directionally selected cytochrome P450 alleles are driving the spread of pyrethroid resistance in th[...]
1 Additional References
GP00000208
CYP2C9
P11712
Physiology
Cis-regulatory variation in CYP6P9b gene
Anopheles funestus
African malaria mosquito - (species)
Anopheles funestus
African malaria mosquito - (species) D
CYP6P9 cluster (CYP6P9a and CYP6P9b)
Anopheles funestus
African malaria mosquito - (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
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
D14 (KAI2 paralog)
Seed dormancy (strigolactone responsiveness)
Coding,
Unknown
Arabidopsis thaliana
thale cress - (species) D
Intergeneric or Higher
Candidate Gene
Conn CE; Bythell-Douglas R; Neumann D ; et al. (2015)
PLANT EVOLUTION. Convergent evolution of strigolactone perception enabled host detection in parasiti[...]
GP00000213
D14
Q10QA5
Physiology
Ligand-binding pocket tuning
Spermatophyta
(no rank)
Arabidopsis thaliana
thale cress - (species) D
D14 (KAI2 paralog)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
Darkener of apricot (Doa)
Lifespan
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Association Mapping
Hoedjes KM; Kostic H; Keller L ; et al. (2022)
Natural alleles at the Doa locus underpin evolutionary changes in Drosophila lifespan and fecundity.
GP00002662
Doa
P49762
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Darkener of apricot (Doa)
Drosophila melanogaster
fruit fly - (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
DC-STAMP domain containing 2 (DCST2)
Body size
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
van der Valk RJ; Kreiner-Møller E; Kooijman MN ; et al. (2015)
A novel common variant in DCST2 is associated with length in early life and height in adulthood.
GP00001509
DCST2
Q5T1A1
Morphology
SNP rs905938 C allele associated with an increase in birth length but probably not the causative mutation
Homo sapiens
human - (species)
Homo sapiens
human - (species)
DC-STAMP domain containing 2 (DCST2)
Homo sapiens
human - (species)
Published - Accepted by Curator
Dca (=smp-30)
Wing size
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Lee SF; Chen Y; Varan AK ; et al. (2011)
Molecular basis of adaptive shift in body size in Drosophila melanogaster: functional and sequence a[...]
1 Additional References
GP00000214
smp-30
Q9VFG5
Morphology
Non-coding
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Dca (=smp-30)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
DCAF17
Hair Length
Unknown,
Unknown
Sus scrofa
pig - (species) D
Domesticated
Association Mapping
Ai H; Fang X; Yang B ; et al. (2015)
Adaptation and possible ancient interspecies introgression in pigs identified by whole-genome sequen[...]
GP00001570
DCAF17
I3LQF0
Physiology
Sus scrofa
pig - (species)
Sus scrofa
pig - (species) D
DCAF17
Sus scrofa
pig - (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
desatF
Pheromone production
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Interspecific
Candidate Gene
Legendre A; Miao XX; Da Lage JL ; et al. (2008)
Evolution of a desaturase involved in female pheromonal cuticular hydrocarbon biosynthesis and court[...]
1 Additional References
GP00000219
desatF
A7DZ97
Physiology
Enrichment/gain of DSX binding sites
Drosophila
(subgenus)
Drosophila melanogaster
fruit fly - (species)
desatF
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
determinant of gall color (dgc)
Coloration (induced gall)
Cis-regulatory,
Unknown
Hormaphis cornu
(species)
Intraspecific
Association Mapping
Korgaonkar A; Han C; Lemire AL ; et al. (2021)
A novel family of secreted insect proteins linked to plant gall development.
GP00002392
Morphology
almost complete silencing of dgc expression in salivary glands of aphids carrying the red gall allele
Hormaphis cornu
(species)
Hormaphis cornu
(species)
determinant of gall color (dgc)
Hormaphis cornu
(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
Dihydrofolate reductase (pvdhfr)
Xenobiotic resistance (pyrimethamine)
Unknown,
Unknown
Plasmodium vivax
malaria parasite P. vivax - (species) D
Intraspecific
Association Mapping
Pearson RD; Amato R; Auburn S ; et al. (2016)
Genomic analysis of local variation and recent evolution in Plasmodium vivax.
GP00001484
DHFR
P00374
Physiology
unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Plasmodium vivax
malaria parasite P. vivax - (species) D
Dihydrofolate reductase (pvdhfr)
Plasmodium vivax
malaria parasite P. vivax - (species)
Published - Accepted by Curator
Dihydropteroate synthase (pvdhps)
Xenobiotic resistance (sulfadoxine)
Unknown,
Unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Intraspecific
Association Mapping
Pearson RD; Amato R; Auburn S ; et al. (2016)
Genomic analysis of local variation and recent evolution in Plasmodium vivax.
GP00001485
DHPS
Q00LX9
Physiology
unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Plasmodium vivax
malaria parasite P. vivax - (species)
Dihydropteroate synthase (pvdhps)
Plasmodium vivax
malaria parasite P. vivax - (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
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 oxidase-3 (Dox-3)
Enzymatic activity
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Candidate Gene
Asada N (1997)
Genetic variants affecting phenoloxidase activity in Drosophila melanogaster.
GP00002000
Physiology
Exact causing mutation(s) unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Dopa oxidase-3 (Dox-3)
Drosophila melanogaster
fruit fly - (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
Coloration (wing ; Batesian mimicry)
Unknown,
Unknown
Papilio memnon
(species)
Intraspecific
Candidate Gene
Iijima T; Kajitani R; Komata S ; et al. (2018)
Parallel evolution of Batesian mimicry supergene in two Papilio butterflies, P. polytes and P. memno[...]
1 Additional References
GP00001967
dsx
P23023
Morphology
A locus containing three genes (dsx; Nach-like and UXT) displays dimorphic sequences strictly associated with the mimetic/nonmimetic phenotypes. Expression of dox; UXT but not Nach-like showed differences correlated with phenotype in female hind wings.
Papilio memnon
(species)
Papilio memnon
(species)
Doublesex
Papilio memnon
(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
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
DYM
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000242
DYM
Q7RTS9
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
DYM
Homo sapiens
human - (species)
Published - Accepted by Curator
E2F1
Silk yield
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Tong X; Han MJ; Lu K ; et al. (2022)
High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecologic[...]
GP00002400
E2f1
Q27368
Physiology
There are one deletion and three insertions in the cis-regulatory region and introns of the E2F1 gene of the improved strain. Higher expression in the improves strain. CRISPR-cas9 mediated knockout of BmE2F1 reduces the number of silk gland cells by 7.68% and silk yield by 22%.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
E2F1
Bombyx mori
domestic silkworm - (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 responsive to dehydration stress protein 4
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001434
ERD4
Q9C8G5
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
early responsive to dehydration stress protein 4
Arabidopsis arenosa
(species)
Published - Accepted by Curator
EBF1
Body fat distribution (pericardial)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001554
EBF1
Q9UH73
Physiology
A>G & T>G in 2 associated SNPs
Homo sapiens
human - (species)
Homo sapiens
human - (species)
EBF1
Homo sapiens
human - (species)
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 auraria
(species) D
Intraspecific
Candidate Gene
Johnson WC; Ordway AJ; Watada M ; et al. (2015)
Genetic Changes to a Transcriptional Silencer Element Confers Phenotypic Diversity within and betwee[...]
GP00000250
e
O76858
Morphology
Inactivation of a conserved silencer resulting in gain-of-expression; the increase in ebony expression in the light strain occurred primarily through mutations affecting the ebony male-specific silencer element
Drosophila auraria
(species)
Drosophila auraria
(species) D
ebony
Drosophila auraria
(species)
Published - Accepted by Curator
ebony
Coloration (posterior abdomen)
Cis-regulatory,
Unknown
Drosophila serrata
(species) D
Interspecific
Candidate Gene
Johnson WC; Ordway AJ; Watada M ; et al. (2015)
Genetic Changes to a Transcriptional Silencer Element Confers Phenotypic Diversity within and betwee[...]
GP00000251
e
O76858
Morphology
loss of the ebony male-specific silencer function - increased expression of ebony
Drosophila jambulina
(species)
Drosophila serrata
(species) D
ebony
Drosophila serrata
(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 (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
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 (coat)
Coloration (eyes)
Hearing (loss)
Unknown,
Unknown
Lama glama
llama - (species) D
Vicugna pacos
alpaca - (species) D
Domesticated
Candidate Gene
Fan R; Gu Z; Guang X ; et al. (2020)
Genomic analysis of the domestication and post-Spanish conquest evolution of the llama and alpaca.
GP00002182
EDN3
P14138
Morphology
Morphology
Physiology
Introgression from alpacas to lamas and clear correlation wit phenotype but no information on the mutation(s)
Vicugna vicugna
vicugna - (species)
Lama glama
llama - (species) D
Vicugna pacos
alpaca - (species) D
EDN3
Lama glama
llama - (species)
Vicugna pacos
alpaca - (species)
Published - Accepted by Curator
EDN3
Coloration
Cis-regulatory,
Unknown
Ambystoma mexicanum
axolotl - (species) D
Domesticated
Candidate Gene
Woodcock MR; Vaughn-Wolfe J; Elias A ; et al. (2017)
Identification of Mutant Genes and Introgressed Tiger Salamander DNA in the Laboratory Axolotl, Amby[...]
GP00002377
EDN3
P14138
Morphology
Ambystoma mexicanum
axolotl - (species)
Ambystoma mexicanum
axolotl - (species) D
EDN3
Ambystoma mexicanum
axolotl - (species)
Published - Accepted by Curator
edn3b
Coloration (reduced number of stripes)
Cis-regulatory,
Unknown
Danio nigrofasciatus
dwarf danio - (species)
Interspecific
Candidate Gene
Spiewak JE; Bain EJ; Liu J ; et al. (2018)
Evolution of Endothelin signaling and diversification of adult pigment pattern in Danio fishes.
GP00002124
edn3b
E9QFS0
Morphology
pigment pattern differences between these species are clearly polygenic, and it seems likely that additional loci, of the endothelin pathway or other pathways, will be identified as contributing to attenuated stripes and interstripes of D. nigrofasciatus compared to D. rerio.
Danio rerio
zebrafish - (species)
Danio nigrofasciatus
dwarf danio - (species)
edn3b
Danio nigrofasciatus
dwarf danio - (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
EGFR
Coloration (skin)
Unknown,
Unknown
Homo sapiens
human - (species) D
Intraspecific
Association Mapping
Quillen EE; Bauchet M; Bigham AW ; et al. (2012)
OPRM1 and EGFR contribute to skin pigmentation differences between Indigenous Americans and European[...]
GP00001537
EGFR
P00533
Morphology
A>T associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species) D
EGFR
Homo sapiens
human - (species)
Published - Accepted by Curator
egl-4 (Ppa-egl-4)
Insect pheromone attraction
Unknown,
Unknown
Pristionchus pacificus
(species)
Intraspecific
Association Mapping
Hong RL; Witte H; Sommer RJ (2008)
Natural variation in Pristionchus pacificus insect pheromone attraction involves the protein kinase [...]
GP00000260
egl-4
O76360
Behavior
unknown
Pristionchus pacificus
(species)
Pristionchus pacificus
(species)
egl-4 (Ppa-egl-4)
Pristionchus pacificus
(species)
Published - Accepted by Curator
EGLN1
Hypoxia response
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Bigham A; Bauchet M; Pinto D ; et al. (2010)
Identifying signatures of natural selection in Tibetan and Andean populations using dense genome sca[...]
GP00000262
EGLN1
Q9GZT9
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
EGLN1
Homo sapiens
human - (species)
Published - Accepted by Curator
EGLN1
High-altitude adaptation
Hypoxia response
Unknown,
Unknown
Anas flavirostris
Yellow-billed teal - (species) D
Intraspecific
Candidate Gene
Graham AM; McCracken KG (2019)
Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes EGLN1 and EPAS1 in high-alt[...]
GP00002135
EGLN1
Q9GZT9
Physiology
Physiology
probably cis-regulatory because no nonsynonymous mutations in the coding exon with high Fst
Anas flavirostris
Yellow-billed teal - (species)
Anas flavirostris
Yellow-billed teal - (species) D
EGLN1
Anas flavirostris
Yellow-billed teal - (species)
Published - Accepted by Curator
EGLN1
High-altitude adaptation
Hypoxia response
Unknown,
Unknown
Anas georgica
yellow-billed pintail - (species) D
Intraspecific
Candidate Gene
Graham AM; McCracken KG (2019)
Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes EGLN1 and EPAS1 in high-alt[...]
GP00002136
EGLN1
Q9GZT9
Physiology
Physiology
probably cis-regulatory because no nonsynonymous mutations in the coding exon with high Fst
Anas georgica
yellow-billed pintail - (species)
Anas georgica
yellow-billed pintail - (species) D
EGLN1
Anas georgica
yellow-billed pintail - (species)
Published - Accepted by Curator
EGNL1
High-altitude adaptation
Hypoxia response
Cis-regulatory,
Unknown
Anas cyanoptera
cinnamon teal - (species) D
Intraspecific
Candidate Gene
Graham AM; McCracken KG (2019)
Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes EGLN1 and EPAS1 in high-alt[...]
GP00002134
EGLN1
Q9GZT9
Physiology
Physiology
probably cis-regulatory because no nonsynonymous mutations in the coding exon with high Fst
Anas cyanoptera
cinnamon teal - (species)
Anas cyanoptera
cinnamon teal - (species) D
EGNL1
Anas cyanoptera
cinnamon teal - (species)
Published - Accepted by Curator
EIF2AK3
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000264
EIF2AK3
Q9NZJ5
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
EIF2AK3
Homo sapiens
human - (species)
Published - Accepted by Curator
EIF2S2
Coloration (skin)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Liu F; Visser M; Duffy DL ; et al. (2015)
Genetics of skin color variation in Europeans: genome-wide association studies with functional follo[...]
GP00001359
EIF2S2
P20042
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
EIF2S2
Homo sapiens
human - (species)
Published - Accepted by Curator
enamelin (ENAM)
Tooth composition (no enamel production)
Coding,
Unknown
N
Manis pentadactyla
Chinese pangolin - (species) D
Manis tricuspis
Tree pangolin - (species) D
Intergeneric or Higher
Candidate Gene
Meredith RW; Gatesy J; Murphy WJ ; et al. (2009)
Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of[...]
GP00001944
ENAM
Q9NRM1
Physiology
multiple deletions and insertions less than 9bp causing frameshift N
Canis lupus familiaris
dog - (subspecies)
Manis pentadactyla
Chinese pangolin - (species) D
Manis tricuspis
Tree pangolin - (species) D
enamelin (ENAM)
Manis pentadactyla
Chinese pangolin - (species)
Manis tricuspis
Tree pangolin - (species)
Published - Accepted by Curator
enamelin (ENAM)
Tooth composition (no enamel production)
Coding,
Unknown
N
Bradypus tridactylus
Pale-throated sloth - (species) D
Tamandua tetradactyla
southern tamandua - (species) D
Dasypus novemcinctus
nine-banded armadillo - (species) D
Euphractus sexcinctus
(species) D
Intergeneric or Higher
Candidate Gene
Meredith RW; Gatesy J; Murphy WJ ; et al. (2009)
Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of[...]
GP00001945
ENAM
Q9NRM1
Physiology
multiple frameshift insertions and deletions N
Canis lupus familiaris
dog - (subspecies)
Bradypus tridactylus
Pale-throated sloth - (species) D
Tamandua tetradactyla
southern tamandua - (species) D
Dasypus novemcinctus
nine-banded armadillo - (species) D
Euphractus sexcinctus
(species) D
enamelin (ENAM)
Bradypus tridactylus
Pale-throated sloth - (species)
Tamandua tetradactyla
southern tamandua - (species)
Dasypus novemcinctus
nine-banded armadillo - (species)
Euphractus sexcinctus
(species)
Published - Accepted by Curator
Endothelin receptor B2
Coloration (feathers ; white-spotting)
Cis-regulatory,
Unknown
Anas platyrhynchos
mallard - (species) D
Domesticated
Association Mapping
Xi Y; Xu Q; Huang Q ; et al. (2021)
Genome-wide association analysis reveals that EDNRB2 causes a dose-dependent loss of pigmentation in[...]
GP00002383
EDNRB2
W8VUK4
Morphology
"The GWAS results identified a 198 kb (Chr4: 10,149,651 bp to 10,348,068 bp) genetic region that was significantly associated with the black spot phenotype. The conditional GWAS and linkage disequilibrium (LD) analysis further narrowed the ultimate candidate region to 167 kb (Chr4: 10,180,939 bp to 10,348,068 bp). A key gene regulating melanoblast migration and differentiation, EDNRB2 (Endothelin B receptor-like), was found in the candidate region and having significant mRNA expression level changes in embryonic duck skin tissue with different spot sizes. The significant SNPs (single nucleotide polymorphisms) associated with the EDNRB2 gene were annotated, and two mutations (Chr4: 10,180,939 T > C and Chr4: 10,190,671 A > T) were found to result in the loss of binding sites for two trans-factors, XBP1 and cMYB. The phenotypic effect of these two mutations suggested that they can regulate the size of black spots in a dose-dependent manner, and Chr4: 10,180,939 T > C was the major allele locus."
Anas platyrhynchos
mallard - (species)
Anas platyrhynchos
mallard - (species) D
Endothelin receptor B2
Anas platyrhynchos
mallard - (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
ENSA
Body fat distribution (pericardial)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001558
ENSA
O43768
Physiology
A>G in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
ENSA
Homo sapiens
human - (species)
Published - Accepted by Curator
EPAS1
Hypoxia response
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Simonson TS; Yang Y; Huff CD ; et al. (2010)
Genetic evidence for high-altitude adaptation in Tibet.
1 Additional References
GP00000274
EPAS1
Q99814
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
EPAS1
Homo sapiens
human - (species)
Published - Accepted by Curator
EPAS1
High-altitude adaptation
Hypoxia response
Unknown,
Unknown
Anas cyanoptera
cinnamon teal - (species) D
Intraspecific
Candidate Gene
Graham AM; McCracken KG (2019)
Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes EGLN1 and EPAS1 in high-alt[...]
GP00002131
EPAS1
Q99814
Physiology
Physiology
several candidate coding mutations
Anas cyanoptera
cinnamon teal - (species)
Anas cyanoptera
cinnamon teal - (species) D
EPAS1
Anas cyanoptera
cinnamon teal - (species)
Published - Accepted by Curator
EPAS1
High-altitude adaptation
Hypoxia response
Unknown,
Unknown
Anas flavirostris
Yellow-billed teal - (species) D
Intraspecific
Candidate Gene
Graham AM; McCracken KG (2019)
Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes EGLN1 and EPAS1 in high-alt[...]
GP00002132
EPAS1
Q99814
Physiology
Physiology
several candidate coding mutations
Anas flavirostris
Yellow-billed teal - (species)
Anas flavirostris
Yellow-billed teal - (species) D
EPAS1
Anas flavirostris
Yellow-billed teal - (species)
Published - Accepted by Curator
EPAS1
High-altitude adaptation
Hypoxia response
Unknown,
Unknown
Anas georgica
yellow-billed pintail - (species) D
Intraspecific
Candidate Gene
Graham AM; McCracken KG (2019)
Convergent evolution on the hypoxia-inducible factor (HIF) pathway genes EGLN1 and EPAS1 in high-alt[...]
GP00002133
EPAS1
Q99814
Physiology
Physiology
several candidate coding mutations
Anas georgica
yellow-billed pintail - (species)
Anas georgica
yellow-billed pintail - (species) D
EPAS1
Anas georgica
yellow-billed pintail - (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
ERG6
Xenobiotic resistance (drug)
Coding,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Experimental Evolution
Association Mapping
Gerstein AC; Lo DS; Otto SP (2012)
Parallel genetic changes and nonparallel gene-environment interactions characterize the evolution of[...]
GP00000288
erg6
O14321
Physiology
7 unique mutations in ERG6 within a total 19 lines ; 4 of these mutations evolved multiple times
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
ERG6
Saccharomyces cerevisiae
baker's yeast - (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
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
F2RL2
Hematopoiesis (mean blood platelet volume)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001617
F2RL2
O00254
Physiology
A>T at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
F2RL2
Homo sapiens
human - (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 acid synthase
Dessication tolerance
Pheromone production (mbCHC)
Cis-regulatory,
Unknown
Drosophila birchii
(species)
Interspecific
Candidate Gene
Chung H; Loehlin DW; Dufour HD ; et al. (2014)
A single gene affects both ecological divergence and mate choice in Drosophila.
GP00002063
FASN3
Q7PLB8
Physiology
Physiology
No expression of the gene in D. birchii. The coding region of the D. birchii gene is intact. Cis-regulatory region tested in reporter assays in D. melanogaster - exact causing mutation(s) unknown. RNAi against mFAS/CG17354 in D. serrata recapitylates the D. birchii phenotype.
Drosophila serrata
(species)
Drosophila birchii
(species)
fatty acid synthase
Drosophila birchii
(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
Ferroportin 2
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001437
IREG2
F4KGN5
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
Ferroportin 2
Arabidopsis arenosa
(species)
Published - Accepted by Curator
FGFR2
Hair thickness
Cis-regulatory,
Unknown
Homo sapiens
human - (species)
Intraspecific
Candidate Gene
Fujimoto A; Nishida N; Kimura R ; et al. (2009)
FGFR2 is associated with hair thickness in Asian populations.
GP00000314
FGFR2
P21802
Morphology
Unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
FGFR2
Homo sapiens
human - (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
Fkh
Silk yield
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xia Q; Guo Y; Zhang Z ; et al. (2009)
Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx).
GP00002411
fkh
P14734
Physiology
Increased expression in high yield strains. The Fkh gene encodes a transcription factor that activates glue genes together with Sage in salivary glands of Drosophila melanogaster.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Fkh
Bombyx mori
domestic silkworm - (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 (flowers)
Unknown,
Unknown
Petunia x hybrida
(species)
Domesticated
Candidate Gene
Brugliera F; Barri-Rewell G; Holton TA ; et al. (1999)
Isolation and characterization of a flavonoid 3'-hydroxylase cDNA clone corresponding to the Ht1 loc[...]
GP00000320
CYP75B1
Q9SD85
Morphology
Not identified
Petunia x hybrida
(species)
Petunia x hybrida
(species)
flavonoid 3'-hydroxylase (F3'H)
Petunia x hybrida
(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 (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
Cis-regulatory,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Candidate Gene
Michaels SD; He Y; Scortecci KC ; et al. (2003)
Attenuation of FLOWERING LOCUS C activity as a mechanism for the evolution of summer-annual flowerin[...]
1 Additional References
GP00000333
FLC
Q9S7Q7
Physiology
Not identified
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-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
FLO1
Cell separation
Other,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Candidate Gene
Smukalla S; Caldara M; Pochet N ; et al. (2008)
FLO1 is a variable green beard gene that drives biofilm-like cooperation in budding yeast.
1 Additional References
GP00000342
FLO1
P32768
Physiology
both coding and non-coding divergence ; polyQ variation
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
FLO1
Saccharomyces cerevisiae
baker's yeast - (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 (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 (LpFT3)
Flowering time
Cis-regulatory,
Unknown
Lolium perenne
(species)
Domesticated
Candidate Gene
Skøt L; Sanderson R; Thomas A ; et al. (2011)
Allelic variation in the perennial ryegrass FLOWERING LOCUS T gene is associated with changes in flo[...]
GP00000347
FT
Q9SXZ2
Physiology
unknown
Lolium perenne
(species)
Lolium perenne
(species)
Flowering locus T (LpFT3)
Lolium perenne
(species)
Published - Accepted by Curator
FMN1
Recombination rate
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001662
FMN1
Q68DA7
Physiology
On chromosome 10. Associated SNP located upstream of the gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
FMN1
Bos taurus
cattle - (species)
Published - Accepted by Curator
foraging
Food-search behavior
Unknown,
Unknown
Sesamia nonagrioides
Mediterranean corn borer - (species)
Intraspecific
Candidate Gene
Chardonnet F; Capdevielle-Dulac C; Chouquet B ; et al. (2014)
Food searching behaviour of a Lepidoptera pest species is modulated by the foraging gene polymorphis[...]
GP00002619
for
Q03043
Behavior
Association between a coding SNP in foraging gene and foraging activity. But not clear whether the causal mutation is this one.
Sesamia nonagrioides
Mediterranean corn borer - (species)
Sesamia nonagrioides
Mediterranean corn borer - (species)
foraging
Sesamia nonagrioides
Mediterranean corn borer - (species)
Published - Accepted by Curator
foxo
Body size (wing)
Starvation resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Betancourt NJ; Rajpurohit S; Durmaz E ; et al. (2021)
Allelic polymorphism at foxo contributes to local adaptation in Drosophila melanogaster.
1 Additional References
GP00002661
foxo
Q95V55
Morphology
Morphology; Physiology
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
foxo
Drosophila melanogaster
fruit fly - (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
FRIZZLED8
Neocortex development
Cis-regulatory,
Unknown
Homo sapiens
human - (species) D
Interspecific
Candidate Gene
Boyd JL; Skove SL; Rouanet JP ; et al. (2015)
Human-chimpanzee differences in a FZD8 enhancer alter cell-cycle dynamics in the developing neocorte[...]
GP00001443
FZD8
Q9H461
Morphology
10 mutations fixed on the human branch in the Hs-HARE5 genomic locus resulting in enhancer activity in developing neocortex
Pan troglodytes
chimpanzee - (species)
Homo sapiens
human - (species) D
FRIZZLED8
Homo sapiens
human - (species)
Published - Accepted by Curator
FRM2
Xenobiotic resistance (citrinin)
Cis-regulatory,
Unknown
Saccharomyces paradoxus
(species) D
Domesticated
Association Mapping
Naranjo S; Smith JD; Artieri CG ; et al. (2015)
Dissecting the Genetic Basis of a Complex cis-Regulatory Adaptation.
GP00001311
FRM2
P37261
Physiology
mutations within 1kb in promotor region
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces paradoxus
(species) D
FRM2
Saccharomyces paradoxus
(species)
Published - Accepted by Curator
FST/MOCS2
coloration (head feathers)
Cis-regulatory,
Unknown
Erythrura gouldiae
Gouldian finch - (species)
Intraspecific
Association Mapping
Toomey MB; Marques CI; Andrade P ; et al. (2018)
A non-coding region near Follistatin controls head colour polymorphism in the Gouldian finch.
1 Additional References
GP00002125
Morphology
candidate locus is a small (approx. 70 kb) non-coding region mapping to the Z chromosome near the FST and MOCS2
Erythrura gouldiae
Gouldian finch - (species)
Erythrura gouldiae
Gouldian finch - (species)
FST/MOCS2
Erythrura gouldiae
Gouldian finch - (species)
Published - Accepted by Curator
FTO
Body fat distribution (subcutaneous)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001560
FTO
Q9C0B1
Physiology
A>G in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
FTO
Homo sapiens
human - (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
GAL1
Carbohydrate metabolism
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species) D
Interspecific
Candidate Gene
Roop JI; Chang KC; Brem RB (2016)
Polygenic evolution of a sugar specialization trade-off in yeast.
GP00001425
GAL1
P04385
Physiology
unknown
Saccharomyces bayanus
(species)
Saccharomyces cerevisiae
baker's yeast - (species) D
GAL1
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
GAL10
Carbohydrate metabolism
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species) D
Interspecific
Candidate Gene
Roop JI; Chang KC; Brem RB (2016)
Polygenic evolution of a sugar specialization trade-off in yeast.
GP00001428
GAL10
P04397
Physiology
unknown
Saccharomyces bayanus
(species)
Saccharomyces cerevisiae
baker's yeast - (species) D
GAL10
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
GAL3
Carbohydrate metabolism
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species) D
Interspecific
Candidate Gene
Roop JI; Chang KC; Brem RB (2016)
Polygenic evolution of a sugar specialization trade-off in yeast.
GP00001426
GAL3
P13045
Physiology
unknown
Saccharomyces bayanus
(species)
Saccharomyces cerevisiae
baker's yeast - (species) D
GAL3
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
GAL4
Carbohydrate metabolism
Cis-regulatory,
Unknown
Saccharomyces cerevisiae
baker's yeast - (species) D
Interspecific
Candidate Gene
Roop JI; Chang KC; Brem RB (2016)
Polygenic evolution of a sugar specialization trade-off in yeast.
GP00001427
GAL4
P04386
Physiology
unknown
Saccharomyces bayanus
(species)
Saccharomyces cerevisiae
baker's yeast - (species) D
GAL4
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
GCLM
Recombination rate
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001664
GCLM
Q2T9Y6
Physiology
On chromosome 3. Associated SNP upstream of the gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
GCLM
Bos taurus
cattle - (species)
Published - Accepted by Curator
GDF5
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Sanna S; Jackson AU; Nagaraja R ; et al. (2008)
Common variants in the GDF5-UQCC region are associated with variation in human height.
1 Additional References
GP00000387
GDF5
P43026
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
GDF5
Homo sapiens
human - (species)
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
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
GHSR
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000394
GHSR
Q92847
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
GHSR
Homo sapiens
human - (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
GLABROUS1
Trichome (leaves)
Unknown,
Unknown
Arabidopsis
(genus)
Intraspecific
Candidate Gene
Hauser MT; Harr B; Schlötterer C (2001)
Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular a[...]
1 Additional References
GP00000398
GL1
P27900
Morphology
unknown
Arabidopsis
(genus)
Arabidopsis
(genus)
GLABROUS1
Arabidopsis
(genus)
Published - Accepted by Curator
GLABROUS1
Trichome density (leaf)
Unknown,
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Association Mapping
Hauser MT; Harr B; Schlötterer C (2001)
Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular a[...]
1 Additional References
GP00001242
GL1
P27900
Morphology
high frequency pattern of polymorphism identified in the third exon and 3' flank
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
GLABROUS1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
glutamate dehydrogenase (GDH)
Silk yield
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xiang H; Liu X; Li M ; et al. (2018)
The evolutionary road from wild moth to domestic silkworm.
1 Additional References
GP00002406
bb8
Q9VCN3
Physiology
Increased expression in the domesticated strains
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
glutamate dehydrogenase (GDH)
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
glutamate synthase (GOGAT)
Silk yield
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xiang H; Liu X; Li M ; et al. (2018)
The evolutionary road from wild moth to domestic silkworm.
1 Additional References
GP00002407
GS
M9NFH8
Physiology
Increased expression in the domesticated strains at the larval stage
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
glutamate synthase (GOGAT)
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
glutamine synthetase 2 (GS)
Silk yield
Unknown,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xiang H; Liu X; Li M ; et al. (2018)
The evolutionary road from wild moth to domestic silkworm.
1 Additional References
GP00002405
Gs2
P20478
Physiology
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
glutamine synthetase 2 (GS)
Bombyx mori
domestic silkworm - (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
Glycophorin GYPA-GYPB-GYPE cluster
Pathogen resistance (Plasmodium; malaria parasite)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
; Band G; Rockett KA ; et al. (2015)
A novel locus of resistance to severe malaria in a region of ancient balancing selection.
GP00000406
GYPA
P02724
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Glycophorin GYPA-GYPB-GYPE cluster
Homo sapiens
human - (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
GNBP1
Pathogen resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Sackton TB; Lazzaro BP; Clark AG (2010)
Genotype and gene expression associations with immune function in Drosophila.
GP00000408
GNBP1
Q9NHB0
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
GNBP1
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
GNBP2
Pathogen resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Sackton TB; Lazzaro BP; Clark AG (2010)
Genotype and gene expression associations with immune function in Drosophila.
GP00000409
GNBP2
Q9VVR4
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
GNBP2
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
GPR133
Body size (weight)
Cis-regulatory,
Unknown
Mus musculus
house mouse - (species)
Domesticated
Association Mapping
Chan YF; Jones FC; McConnell E ; et al. (2012)
Parallel selection mapping using artificially selected mice reveals body weight control loci.
GP00000411
ADGRD1
Q6QNK2
Physiology
unknown
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
GPR133
Mus musculus
house mouse - (species)
Published - Accepted by Curator
GPR133
Body size (height; male-limited)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Tönjes A; Koriath M; Schleinitz D ; et al. (2009)
Genetic variation in GPR133 is associated with height: genome wide association study in the self-con[...]
GP00000412
ADGRD1
Q6QNK2
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
GPR133
Homo sapiens
human - (species)
Published - Accepted by Curator
GPX2
Xenobiotic resistance (citrinin)
Cis-regulatory,
Unknown
Saccharomyces paradoxus
(species) D
Interspecific
Association Mapping
Naranjo S; Smith JD; Artieri CG ; et al. (2015)
Dissecting the Genetic Basis of a Complex cis-Regulatory Adaptation.
GP00001310
GPX2
P38143
Physiology
mutations within 1kb in promotor region
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces paradoxus
(species) D
GPX2
Saccharomyces paradoxus
(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
GRAMD3
Body fat distribution (visceral)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001557
GRAMD2B
Q96HH9
Physiology
A>C in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
GRAMD3
Homo sapiens
human - (species)
Published - Accepted by Curator
GRAMD3
Coloration (skin)
Cis-regulatory,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Xu J; Lin S; Gao X ; et al. (2017)
Mapping of Id locus for dermal shank melanin in a Chinese indigenous chicken breed.
GP00002391
GRAMD3
F1NDM3
Morphology
No coding mutation in GRAMD3. The expression of GRAMD3 gene in the dermis tissues of the shank was significantly (P = 0.010738 < 0.05) higher in 350-day-old Gushi chickens characterized by the dermal shank pigmentation than in one-day-old Gushi chickens. Variation in the flanking region of GRAMD3 probably leads to the abnormal expression of GRAMD3.
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
GRAMD3
Gallus gallus
chicken - (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
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
GSDMB
Body fat distribution (subcutaneous)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001556
GSDMB
Q8TAX9
Physiology
T>C in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
GSDMB
Homo sapiens
human - (species)
Published - Accepted by Curator
GSS (glutathione synthetase)
Coloration (skin)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Liu F; Visser M; Duffy DL ; et al. (2015)
Genetics of skin color variation in Europeans: genome-wide association studies with functional follo[...]
GP00001362
GSS
P48637
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
GSS (glutathione synthetase)
Homo sapiens
human - (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
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
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
HAS2
Wrinkled skin (Shar-Pei dogs)
Cis-regulatory,
Unknown
Canis lupus familiaris
dog - (subspecies) D
Domesticated
Association Mapping
Akey JM; Ruhe AL; Akey DT ; et al. (2010)
Tracking footprints of artificial selection in the dog genome.
GP00000438
HAS2
J9PB16
Morphology
unknown
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies) D
HAS2
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
HBS1L-MYB
Hematopoiesis (blood platelet count)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001614
HBS1L
Q9Y450
Physiology
T>C at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
HBS1L-MYB
Homo sapiens
human - (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
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
herfst
Coloration (wing; seasonal)
Cis-regulatory,
Unknown
Junonia coenia
buckeye - (species) D
Experimental Evolution
Association Mapping
van der Burg KRL; Lewis JJ; Brack BJ ; et al. (2020)
Genomic architecture of a genetically assimilated seasonal color pattern.
GP00002422
rk
Q7KTA0
Morphology
No variation in coding region. Strong association with cis-regulatory SNP. CRISPR mutant clones for the herfst gene display light tan scales.
Junonia coenia
buckeye - (species)
Junonia coenia
buckeye - (species) D
herfst
Junonia coenia
buckeye - (species)
Published - Accepted by Curator
high expression of osmotically responsive genes 2
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001435
SAL1
Q42546
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
high expression of osmotically responsive genes 2
Arabidopsis arenosa
(species)
Published - Accepted by Curator
HLA-DQA1
Histocompatibility
Cis-regulatory,
Unknown
Papio
baboons - (genus)
Intraspecific
Candidate Gene
Loisel DA; Rockman MV; Wray GA ; et al. (2006)
Ancient polymorphism and functional variation in the primate MHC-DQA1 5' cis-regulatory region.
GP00000478
HLA-DQA1
P01909
Physiology
Promoter variation
Papio
baboons - (genus)
Papio
baboons - (genus)
HLA-DQA1
Papio
baboons - (genus)
Published - Accepted by Curator
HLA-DRB1
Pathogen resistance (typhoid fever)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Dunstan SJ; Hue NT; Han B ; et al. (2014)
Variation at HLA-DRB1 is associated with resistance to enteric fever.
GP00000479
HLA-DRB1
Q30167
Physiology
uncharacterized
Homo sapiens
human - (species)
Homo sapiens
human - (species)
HLA-DRB1
Homo sapiens
human - (species)
Published - Accepted by Curator
HM1 = HC toxin reductase (HCTR)
Pathogen resistance
Unknown,
Unknown
Zea mays
(species)
Domesticated
Candidate Gene
Multani DS; Meeley RB; Paterson AH ; et al. (1998)
Plant-pathogen microevolution: molecular basis for the origin of a fungal disease in maize.
GP00000480
hm1
O49163
Physiology
Not identified
Zea mays
(species)
Zea mays
(species)
HM1 = HC toxin reductase (HCTR)
Zea mays
(species)
Published - Accepted by Curator
HMGA2
Body size
Unknown,
Unknown
Canis lupus familiaris
dog - (subspecies) D
Domesticated
Association Mapping
Akey JM; Ruhe AL; Akey DT ; et al. (2010)
Tracking footprints of artificial selection in the dog genome.
1 Additional References
GP00000484
HMGA2
P52926
Morphology
unknown
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies) D
HMGA2
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
HMGA2
Body size
Unknown,
Unknown
Equus caballus
horse - (species)
Domesticated
Association Mapping
Makvandi-Nejad S; Hoffman GE; Allen JJ ; et al. (2012)
Four loci explain 83% of size variation in the horse.
GP00000485
HMGA2
P52926
Morphology
unknown
Equus caballus
horse - (species)
Equus caballus
horse - (species)
HMGA2
Equus caballus
horse - (species)
Published - Accepted by Curator
HMGA2
Body size (height; bone mineral density)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Weedon MN; Lettre G; Freathy RM ; et al. (2007)
A common variant of HMGA2 is associated with adult and childhood height in the general population.
3 Additional References
GP00000486
HMGA2
P52926
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
HMGA2
Homo sapiens
human - (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
HOXC8 - uncertain
Feathers (crest morphology)
Cis-regulatory,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Wang Y; Gao Y; Imsland F ; et al. (2012)
The crest phenotype in chicken is associated with ectopic expression of HOXC8 in cranial skin.
GP00000489
HOXC8
Q9YH13
Morphology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
HOXC8 - uncertain
Gallus gallus
chicken - (species)
Published - Accepted by Curator
HTR2C serotonin receptor
Immune response (complement activation)
Unknown,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Biscarini F; Bovenhuis H; van Arendonk JA ; et al. (2010)
Across-line SNP association study of innate and adaptive immune response in laying hens.
GP00001595
HTR2C
F1N989
Physiology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
HTR2C serotonin receptor
Gallus gallus
chicken - (species)
Published - Accepted by Curator
HTR3A serotonin receptor
Immune response (antibody titre)
Unknown,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Biscarini F; Bovenhuis H; van Arendonk JA ; et al. (2010)
Across-line SNP association study of innate and adaptive immune response in laying hens.
GP00001596
HTR3A
A0A1D5P8L2
Physiology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
HTR3A serotonin receptor
Gallus gallus
chicken - (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
I Kappa B Kinase Interacting Protein (IKBIP)
Lifespan
Unknown,
Unknown
Nothobranchius furzeri
turquoise killifish - (species)
Intraspecific
Association Mapping
Reichwald K; Petzold A; Koch P ; et al. (2015)
Insights into Sex Chromosome Evolution and Aging from the Genome of a Short-Lived Fish.
GP00001678
IKBIP
Q70UQ0
Physiology
Under positive selection; down regulated in aging skin
Nothobranchius furzeri
turquoise killifish - (species)
Nothobranchius furzeri
turquoise killifish - (species)
I Kappa B Kinase Interacting Protein (IKBIP)
Nothobranchius furzeri
turquoise killifish - (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
IGK
Pathogen resistance
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Association Mapping
Jones FC; Chan YF; Schmutz J ; et al. (2012)
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence i[...]
GP00001382
IGKV1-5
P01602
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
IGK
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
Immune deficiency
Pathogen resistance
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Lazzaro BP; Sceurman BK; Clark AG (2004)
Genetic basis of natural variation in D. melanogaster antibacterial immunity.
GP00000499
imd
Q9NHG0
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Immune deficiency
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Inhibitor of DNA binding 3 (id3)
Lifespan
Unknown,
Unknown
Nothobranchius furzeri
turquoise killifish - (species) D
Intraspecific
Association Mapping
Reichwald K; Petzold A; Koch P ; et al. (2015)
Insights into Sex Chromosome Evolution and Aging from the Genome of a Short-Lived Fish.
GP00001676
ID3
Q02535
Physiology
Signature of selection for id3. upregulated during aging in brain and skin. A radical substitution of a non-polar by a charged aa (A>Q) followed by a 2-aa deletion in the C-terminus
Nothobranchius furzeri
turquoise killifish - (species)
Nothobranchius furzeri
turquoise killifish - (species) D
Inhibitor of DNA binding 3 (id3)
Nothobranchius furzeri
turquoise killifish - (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 1 (IGF1)
Body size
Cis-regulatory,
Unknown
Canis lupus familiaris
dog - (subspecies)
Domesticated
Association Mapping
Sutter NB; Bustamante CD; Chase K ; et al. (2007)
A single IGF1 allele is a major determinant of small size in dogs.
1 Additional References
GP00000501
Igf1
P05017
Morphology
Not identified / several haplotypes
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies)
Insulin-like growth factor 1 (IGF1)
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
Insulin-like growth factor receptor 1 (IGF1R)
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000503
IGF1R
P08069
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Insulin-like growth factor receptor 1 (IGF1R)
Homo sapiens
human - (species)
Published - Accepted by Curator
Interleukin 10 (IL10)
Immune response (antibody titre and complement activation)
Unknown,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Biscarini F; Bovenhuis H; van Arendonk JA ; et al. (2010)
Across-line SNP association study of innate and adaptive immune response in laying hens.
GP00001597
IL10
Q6A2H4
Physiology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
Interleukin 10 (IL10)
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Interleukin 12B (IL12B)
Immune response (antibody titre)
Unknown,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Biscarini F; Bovenhuis H; van Arendonk JA ; et al. (2010)
Across-line SNP association study of innate and adaptive immune response in laying hens.
GP00001594
IL-12B
Q6X0K9
Physiology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
Interleukin 12B (IL12B)
Gallus gallus
chicken - (species)
Published - Accepted by Curator
Interleukin 17A (IL17A)
Immune response (antibody titre and complement activation)
Unknown,
Unknown
Gallus gallus
chicken - (species)
Domesticated
Association Mapping
Biscarini F; Bovenhuis H; van Arendonk JA ; et al. (2010)
Across-line SNP association study of innate and adaptive immune response in laying hens.
GP00001593
IL17A
B4ER12
Physiology
unknown
Gallus gallus
chicken - (species)
Gallus gallus
chicken - (species)
Interleukin 17A (IL17A)
Gallus gallus
chicken - (species)
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
JAK2
Hematopoiesis (blood platelet count)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001613
JAK2
O60674
Physiology
G>A at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
JAK2
Homo sapiens
human - (species)
Published - Accepted by Curator
JAZF1
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Johansson A; Marroni F; Hayward C ; et al. (2009)
Common variants in the JAZF1 gene associated with height identified by linkage and genome-wide assoc[...]
1 Additional References
GP00000507
JAZF1
Q86VZ6
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
JAZF1
Homo sapiens
human - (species)
Published - Accepted by Curator
JMJD1C
Hematopoiesis (mean blood platelet volume)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001606
JMJD1C
Q15652
Physiology
T>A at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
JMJD1C
Homo sapiens
human - (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
K+ uptake permease 9
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001430
POT9
O49423
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
K+ uptake permease 9
Arabidopsis arenosa
(species)
Published - Accepted by Curator
KAI2 paralogs
Seed dormancy (strigolactone responsiveness)
Coding,
Unknown
Orobancheae
(tribe) D
Intergeneric or Higher
Candidate Gene
Conn CE; Bythell-Douglas R; Neumann D ; et al. (2015)
PLANT EVOLUTION. Convergent evolution of strigolactone perception enabled host detection in parasiti[...]
GP00000509
D14
Q10QA5
Physiology
Ligand-binding pocket tuning in duplicated gene
Orobanchaceae
(family)
Orobancheae
(tribe) D
KAI2 paralogs
Orobancheae
(tribe)
Published - Accepted by Curator
KCNH4 - uncertain
Freshwater adaptation
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Association Mapping
Jones FC; Grabherr MG; Chan YF ; et al. (2012)
The genomic basis of adaptive evolution in threespine sticklebacks.
GP00000510
KCNH4
Q9UQ05
Physiology
Large Inversion resulting in alternative transcripts
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
KCNH4 - uncertain
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
Kcnj13
Coloration
Unknown,
Unknown
Danio aesculapii
(species) D
Interspecific
Candidate Gene
Podobnik M; Frohnhöfer HG; Dooley CM ; et al. (2020)
Evolution of the potassium channel gene Kcnj13 underlies colour pattern diversification in Danio fis[...]
GP00002364
Kcnj13
P86046
Morphology
Danio rerio
zebrafish - (species)
Danio aesculapii
(species) D
Kcnj13
Danio aesculapii
(species)
Published - Accepted by Curator
kin of irre (kire)
Xenobiotic resistance (methylmercury ; development)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Association Mapping
Montgomery SL; Vorojeikina D; Huang W ; et al. (2014)
Genome-wide association analysis of tolerance to methylmercury toxicity in Drosophila implicates myo[...]
GP00001398
kirre
Q9N9Y9
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
kin of irre (kire)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)
Coloration (coat)
Unknown,
Unknown
Vulpes vulpes
red fox - (species) D
Domesticated
Association Mapping
Kukekova AV; Johnson JL; Kharlamova AV ; et al. (2016)
Georgian white coat color of red fox (Vulpes vulpes) maps to fox chromosome 2 in the region containi[...]
GP00001328
Kit
P05532
Morphology
unknown
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 ligand
Coloration (coat)
Cis-regulatory,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Miller CT; Beleza S; Pollen AA ; et al. (2007)
cis-Regulatory changes in Kit ligand expression and parallel evolution of pigmentation in sticklebac[...]
1 Additional References
GP00000522
KITLG
P21583
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Kit ligand
Homo sapiens
human - (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
KUK
Root development
2 Mutations:
Unknown
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Association Mapping
Meijón M; Satbhai SB; Tsuchimatsu T ; et al. (2014)
Genome-wide association study using cellular traits identifies a new regulator of root development i[...]
GP00001233
At1g60370
O80758
Morphology
2 mutations
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
KUK
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
LACCASE 8
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001436
LAC8
Q9LFD2
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
LACCASE 8
Arabidopsis arenosa
(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
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
LCORL
Body size
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Horikoshi M; Yaghootkar H; Mook-Kanamori DO ; et al. (2013)
New loci associated with birth weight identify genetic links between intrauterine growth[...]
GP00000537
LCORL
Q8N3X6
Morphology
Not identified
Homo sapiens
human - (species)
Homo sapiens
human - (species)
LCORL
Homo sapiens
human - (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
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
lin-48
Excretory duct position
4 Mutations:
Cis-regulatory
Unknown
Caenorhabditis elegans
(species) D
Interspecific
Candidate Gene
Wang X; Chamberlin HM (2002)
Multiple regulatory changes contribute to the evolution of the Caenorhabditis lin-48 ovo gene.
1 Additional References
GP00000544
lin-48
G5EDU6
Morphology
4 mutations
Caenorhabditis briggsae
(species)
Caenorhabditis remanei
(species)
Caenorhabditis japonica
(species)
Caenorhabditis elegans
(species) D
lin-48
Caenorhabditis elegans
(species)
Published - Accepted by Curator
LIN28B
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000548
LIN28B
Q6ZN17
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
LIN28B
Homo sapiens
human - (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
LY86
Body fat distribution (visceral/subcutaneous ratio)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001562
LY86
O95711
Physiology
A>T in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
LY86
Homo sapiens
human - (species)
Published - Accepted by Curator
LYPLAL1
Body fat distribution (visceral/subcutaneous ratio)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001561
LYPLAL1
Q5VWZ2
Physiology
T>C in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
LYPLAL1
Homo sapiens
human - (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
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
MARVELD3
Pathogen resistance (Plasmodium; malaria parasite)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Timmann C; Thye T; Vens M ; et al. (2012)
Genome-wide association study indicates two novel resistance loci for severe malaria.
GP00000564
MARVELD3
Q96A59
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
MARVELD3
Homo sapiens
human - (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
MATE1/ZmMATE1
Metal tolerance
Unknown,
Unknown
Zea mays
(species)
Domesticated
Candidate Gene
Maron LG; Piñeros MA; Guimarães CT ; et al. (2010)
Two functionally distinct members of the MATE (multi-drug and toxic compound extrusion) family of tr[...]
GP00000566
Physiology
unknown
Zea mays
(species)
Zea mays
(species)
MATE1/ZmMATE1
Zea mays
(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
MGAM
Starch processing
Cis-regulatory,
Unknown
Canis lupus familiaris
dog - (subspecies)
Domesticated
Association Mapping
Axelsson E; Ratnakumar A; Arendt ML ; et al. (2013)
The genomic signature of dog domestication reveals adaptation to a starch-rich diet.
GP00000654
MGAM
O43451
Physiology
unknown
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies)
MGAM
Canis lupus familiaris
dog - (subspecies)
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 (coat)
Unknown,
Unknown
Bos taurus
cattle - (species) D
Domesticated
Association Mapping
Hofstetter S; Seefried F; Häfliger IM ; et al. (2019)
A non-coding regulatory variant in the 5'-region of the MITF gene is associated with white-spotted c[...]
GP00002326
Mitf
Q08874
Morphology
unknown based SNP association
Bos taurus
cattle - (species)
Bos taurus
cattle - (species) D
Microphtalmia-associated transcription factor
Bos taurus
cattle - (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
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,
Unknown
Triticum monococcum
(species)
Domesticated
Candidate Gene
Halterman D; Zhou F; Wei F ; et al. (2001)
The MLA6 coiled-coil, NBS-LRR protein confers AvrMla6-dependent resistance specificity to Blumeria g[...]
1 Additional References
GP00000669
Mla1
Q7EXP5
Physiology
Coding variation in the LRR domain
Triticum monococcum
(species)
Triticum monococcum
(species)
Mla1
Triticum monococcum
(species)
Published - Accepted by Curator
MSH4
Recombination rate (female)
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001665
MSH4
E1BK76
Physiology
On chromosome 3. Associated SNP located in the intron of the gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
MSH4
Bos taurus
cattle - (species)
Published - Accepted by Curator
Mucin gene family
Salt tolerance
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Association Mapping
Jones FC; Chan YF; Schmutz J ; et al. (2012)
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence i[...]
GP00001378
MUC1
P15941
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
Mucin gene family
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
MYB1
Coloration (inner flesh)
Cis-regulatory,
Unknown
Beta vulgaris
(species)
Domesticated
Candidate Gene
Hatlestad GJ; Akhavan NA; Sunnadeniya RM ; et al. (2015)
The beet Y locus encodes an anthocyanin MYB-like protein that activates the betalain red pigment pat[...]
GP00001396
MYB1
M1ETA5
Physiology
unknown mutations within 460bp of putative 5 prime UTR
Beta vulgaris
(species)
Beta vulgaris
(species)
MYB1
Beta vulgaris
(species)
Published - Accepted by Curator
Na/K ATPase
Salt tolerance
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Association Mapping
Jones FC; Chan YF; Schmutz J ; et al. (2012)
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence i[...]
GP00001377
ATP1A1
P05023
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
Na/K ATPase
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
Na/K-ATPase alpha-subunit
Xenobiotic resistance (cardiac glycosides)
Coding,
Unknown
Hydra vulgaris
(species) D
Intergeneric or Higher
Candidate Gene
Canfield VA; Xu KY; D'Aquila T ; et al. (1992)
Molecular cloning and characterization of Na,K-ATPase from Hydra vulgaris: implications for enzyme e[...]
GP00001738
Atp1a1
Q8VDN2
Physiology
Eumetazoa
(no rank)
Hydra vulgaris
(species) D
Na/K-ATPase alpha-subunit
Hydra vulgaris
(species)
Published - Accepted by Curator
nAChR
Xenobiotic resistance (insecticide; spinosad)
Coding,
Unknown
N
Bactrocera dorsalis
oriental fruit fly - (species) D
Intraspecific
Candidate Gene
Hsu JC; Feng HT; Wu WJ ; et al. (2012)
Truncated transcripts of nicotinic acetylcholine subunit gene Bdα6 are associated with spinosad resi[...]
GP00002650
CHRNA6
Q15825
Physiology
Mutation in Bdα6 intron 2 (A change to T) just before the truncated/mis-splicing region and in same location with a mutation previously reported in the Pxylα6 gene. Small deletions and insertions leading to premature stop codons in exon 7. N
Bactrocera dorsalis
oriental fruit fly - (species)
Bactrocera dorsalis
oriental fruit fly - (species) D
nAChR
Bactrocera dorsalis
oriental fruit fly - (species)
Published - Accepted by Curator
natriuretic peptide precursor type C (NPPC)
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Estrada K; Krawczak M; Schreiber S ; et al. (2009)
A genome-wide association study of northwestern Europeans involves the C-type natriuretic peptide si[...]
GP00000719
Nppc
Q61839
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
natriuretic peptide precursor type C (NPPC)
Homo sapiens
human - (species)
Published - Accepted by Curator
natriuretic peptide receptor 3 (NPR3)
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Estrada K; Krawczak M; Schreiber S ; et al. (2009)
A genome-wide association study of northwestern Europeans involves the C-type natriuretic peptide si[...]
1 Additional References
GP00000720
NPR3
Q8L746
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
natriuretic peptide receptor 3 (NPR3)
Homo sapiens
human - (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
NEK9
Recombination rate
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001663
NEK9
F1MM88
Physiology
On chromosome 10. Associated SNP located 10 kb dowstream
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
NEK9
Bos taurus
cattle - (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
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
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
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
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
OPRM1
Coloration (skin)
Unknown,
Unknown
Homo sapiens
human - (species) D
Intraspecific
Association Mapping
Quillen EE; Bauchet M; Bigham AW ; et al. (2012)
OPRM1 and EGFR contribute to skin pigmentation differences between Indigenous Americans and European[...]
GP00001536
OPRM1
P35372
Morphology
C>T associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species) D
OPRM1
Homo sapiens
human - (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
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
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
PABPN1
Recombination rate
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001660
PABPN1
Q28165
Physiology
On chromosome 10. Associated SNP located dowstream of PABPN1
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
PABPN1
Bos taurus
cattle - (species)
Published - Accepted by Curator
pannier
Coloration (elytra)
Cis-regulatory,
Unknown
Harmonia axyridis
(species)
Intraspecific
Association Mapping
Ando T; Niimi T (2019)
Development and evolution of color patterns in ladybird beetles: A case study in Harmonia axyridis.
2 Additional References
GP00001705
pnr
P52168
Morphology
exact mutation(s) unknown
Harmonia axyridis
(species)
Harmonia axyridis
(species)
pannier
Harmonia axyridis
(species)
Published - Accepted by Curator
pannier
Coloration (elytra)
Cis-regulatory,
Unknown
Harmonia axyridis
(species)
Intraspecific
Association Mapping
Ando T; Niimi T (2019)
Development and evolution of color patterns in ladybird beetles: A case study in Harmonia axyridis.
2 Additional References
GP00001706
pnr
P52168
Morphology
exact mutation(s) unknown
Harmonia axyridis
(species)
Harmonia axyridis
(species)
pannier
Harmonia axyridis
(species)
Published - Accepted by Curator
pannier
Coloration (elytra)
Cis-regulatory,
Unknown
Harmonia axyridis
(species)
Intraspecific
Association Mapping
Ando T; Niimi T (2019)
Development and evolution of color patterns in ladybird beetles: A case study in Harmonia axyridis.
2 Additional References
GP00001707
pnr
P52168
Morphology
exact mutation(s) unknown
Harmonia axyridis
(species)
Harmonia axyridis
(species)
pannier
Harmonia axyridis
(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
pastrel
Pathogen resistance (viruses)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Association Mapping
Magwire MM; Fabian DK; Schweyen H ; et al. (2012)
Genome-wide association studies reveal a simple genetic basis of resistance to naturally coevolving [...]
GP00000854
pst
Q8IQ82
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
pastrel
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
Patched1 (Ptc1)
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00000855
ptch1
Q98864
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Patched1 (Ptc1)
Homo sapiens
human - (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
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
pax7a
Coloration (scales)
Cis-regulatory,
Unknown
Labeotropheus trewavasae
(species)
Intraspecific
Candidate Gene
Roberts RB; Moore EC; Kocher TD (2017)
An allelic series at pax7a is associated with colour polymorphism diversity in Lake Malawi cichlid f[...]
GP00001422
Pax7
P47239
Morphology
unknown
Labeotropheus trewavasae
(species)
Labeotropheus trewavasae
(species)
pax7a
Labeotropheus trewavasae
(species)
Published - Accepted by Curator
pax7a
Coloration (scales)
Cis-regulatory,
Unknown
Labeotropheus trewavasae
(species)
Intraspecific
Candidate Gene
Roberts RB; Moore EC; Kocher TD (2017)
An allelic series at pax7a is associated with colour polymorphism diversity in Lake Malawi cichlid f[...]
GP00001423
Pax7
P47239
Morphology
unknown
Labeotropheus trewavasae
(species)
Labeotropheus trewavasae
(species)
pax7a
Labeotropheus trewavasae
(species)
Published - Accepted by Curator
pax7a
Coloration (scales)
Cis-regulatory,
Unknown
Labeotropheus trewavasae
(species)
Intraspecific
Candidate Gene
Roberts RB; Moore EC; Kocher TD (2017)
An allelic series at pax7a is associated with colour polymorphism diversity in Lake Malawi cichlid f[...]
GP00001424
Pax7
P47239
Morphology
unknown
Labeotropheus trewavasae
(species)
Labeotropheus trewavasae
(species)
pax7a
Labeotropheus trewavasae
(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
PEPT1
Anti-freezing
Coding,
Unknown
Chionodraco hamatus
Antarctic icefish - (species)
Intergeneric or Higher
Candidate Gene
Rizzello A; Romano A; Kottra G ; et al. (2013)
Protein cold adaptation strategy via a unique seven-amino acid domain in the icefish (Chionodraco ha[...]
GP00000858
slc15a1
Q804I3
Physiology
C-terminal (cytosolic) de novo VDMSRKS domain conferring cold resistance
Teleostei
teleost fishes - (infraclass)
Chionodraco hamatus
Antarctic icefish - (species)
PEPT1
Chionodraco hamatus
Antarctic icefish - (species)
Published - Accepted by Curator
Period (per)
Diapause
Unknown,
Unknown
Pieris napi
(species)
Intraspecific
Association Mapping
Pruisscher P; Nylin S; Wheat CW ; et al. (2021)
A region of the sex chromosome associated with population differences in diapause induction contains[...]
1 Additional References
GP00002427
per
P07663
Physiology
Multiple amino acid differences. Presence of five fixed SNPs between the N and S populations (one intergenic, two intronic and two exonic nonsynonymous substitutions).
Pieris napi
(species)
Pieris napi
(species)
Period (per)
Pieris napi
(species)
Published - Accepted by Curator
PGRP-LC
Pathogen resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Sackton TB; Lazzaro BP; Clark AG (2010)
Genotype and gene expression associations with immune function in Drosophila.
GP00000861
PGRP-LC
Q9GNK5
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
PGRP-LC
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
PHGPx
Xenobiotic resistance (gemcitabine ; female fertility)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Association Mapping
King EG; Kislukhin G; Walters KN ; et al. (2014)
Using Drosophila melanogaster to identify chemotherapy toxicity genes.
GP00001405
PHGPx
Q8IRD4
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
PHGPx
Drosophila melanogaster
fruit fly - (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
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
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
PIK3CG
Hematopoiesis (mean blood platelet volume)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001611
PIK3CG
P48736
Physiology
C>G at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
PIK3CG
Homo sapiens
human - (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
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
PPAR-alpha
Hypoxia response
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Simonson TS; Yang Y; Huff CD ; et al. (2010)
Genetic evidence for high-altitude adaptation in Tibet.
1 Additional References
GP00000917
PPARA
Q07869
Physiology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
PPAR-alpha
Homo sapiens
human - (species)
Published - Accepted by Curator
PPAR-delta
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
N'Diaye A; Chen GK; Palmer CD ; et al. (2011)
Identification, replication, and fine-mapping of Loci associated with adult height in individuals of[...]
1 Additional References
GP00000918
PPARD
Q03181
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
PPAR-delta
Homo sapiens
human - (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 (use of recombination hotspots)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Candidate Gene
Berg IL; Neumann R; Sarbajna S ; et al. (2011)
Variants of the protein PRDM9 differentially regulate a set of human meiotic recombination hotspots [...]
GP00000923
Prdm9
Q96EQ9
Physiology
Various haplotypes
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Prdm9
Homo sapiens
human - (species)
Published - Accepted by Curator
PRKCD
Pathogen resistance
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Association Mapping
Jones FC; Chan YF; Schmutz J ; et al. (2012)
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence i[...]
GP00001381
PRKCD
Q05655
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
PRKCD
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
PROG1
Plant architecture
Unknown,
Unknown
Oryza sativa
rice - (species)
Domesticated
Candidate Gene
Tan L; Li X; Liu F ; et al. (2008)
Control of a key transition from prostrate to erect growth in rice domestication.
2 Additional References
GP00000925
PROG1
Q69NY0
Morphology
Various
Oryza rufipogon
(species)
Oryza sativa
rice - (species)
PROG1
Oryza sativa
rice - (species)
Published - Accepted by Curator
Prolactin releasing hormone receptor (Prlhr/GPR10)
Body size (weight)
Cis-regulatory,
Unknown
Mus musculus
house mouse - (species)
Domesticated
Association Mapping
Chan YF; Jones FC; McConnell E ; et al. (2012)
Parallel selection mapping using artificially selected mice reveals body weight control loci.
GP00000928
PRLHR
P49683
Physiology
unknown
Mus musculus
house mouse - (species)
Mus musculus
house mouse - (species)
Prolactin releasing hormone receptor (Prlhr/GPR10)
Mus musculus
house mouse - (species)
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
prolyl endopeptidase (PREP)
Coloration (scales)
Cis-regulatory,
Unknown
Uta stansburiana
(species) D
Intraspecific
Association Mapping
Corl A; Bi K; Luke C ; et al. (2018)
The Genetic Basis of Adaptation following Plastic Changes in Coloration in a Novel Environment.
GP00002108
PREP
P48147
Morphology
no coding mutation associated with the phenotype - 2 differentiated SNPs in introns and one is a synonymous change.
Uta stansburiana
(species)
Uta stansburiana
(species) D
prolyl endopeptidase (PREP)
Uta stansburiana
(species)
Published - Accepted by Curator
prophenoloxidase 1 (PPO1)
Enzymatic activity
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Candidate Gene
Asada N (1997)
Genetic variants affecting phenoloxidase activity in Drosophila melanogaster.
GP00002001
Physiology
Exact causing mutation(s) unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
prophenoloxidase 1 (PPO1)
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
protein kinase cAMP-dependent type I regulatory subunit alpha (PRKAR1A)
Coloration (scales)
Cis-regulatory,
Unknown
Uta stansburiana
(species) D
Intraspecific
Association Mapping
Corl A; Bi K; Luke C ; et al. (2018)
The Genetic Basis of Adaptation following Plastic Changes in Coloration in a Novel Environment.
GP00002109
Prkar1a
Q9DBC7
Morphology
no coding mutation associated with the phenotype - one differentiated SNP in an intron in the 5' UTR
Uta stansburiana
(species)
Uta stansburiana
(species) D
protein kinase cAMP-dependent type I regulatory subunit alpha (PRKAR1A)
Uta stansburiana
(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
Prx1 = Mhox = Prrx1
Limb length
Cis-regulatory,
Unknown
Carollia perspicillata
Seba's short-tailed bat - (species)
Intergeneric or Higher
Candidate Gene
Cretekos CJ; Wang Y; Green ED ; et al. (2008)
Regulatory divergence modifies limb length between mammals.
GP00000934
Prrx1
P63013
Morphology
Not identified
Mus musculus
house mouse - (species)
Carollia perspicillata
Seba's short-tailed bat - (species)
Prx1 = Mhox = Prrx1
Carollia perspicillata
Seba's short-tailed bat - (species)
Published - Accepted by Curator
PSMD13
Hematopoiesis (mean blood platelet volume)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001615
PSMD13
Q9UNM6
Physiology
A>G at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
PSMD13
Homo sapiens
human - (species)
Published - Accepted by Curator
Ptch1
Limb morphology (skeleton)
Cis-regulatory,
Unknown
Bos taurus
cattle - (species) D
Intergeneric or Higher
Candidate Gene
Lopez-Rios J; Duchesne A; Speziale D ; et al. (2014)
Attenuated sensing of SHH by Ptch1 underlies evolution of bovine limbs.
GP00001389
Ptch1
Q61115
Morphology
LRM enhancer located between coding exons 15 and 19 at 37 kb of the transcription start site - exact causing mutation(s) unknown - Loss of activity of the LRM enhancer that normally upregulates Ptch1 expression in the limb-bud mesenchyme in response to SHH signalling
Mus musculus
house mouse - (species)
Bos taurus
cattle - (species) D
Ptch1
Bos taurus
cattle - (species)
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
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
PVX_084940
Xenobiotic resistance (multiresistance to antimalarial drugs)
Unknown,
Unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Intraspecific
Association Mapping
Pearson RD; Amato R; Auburn S ; et al. (2016)
Genomic analysis of local variation and recent evolution in Plasmodium vivax.
GP00001487
PVX_084940
A5K0T0
Physiology
unknown
Plasmodium vivax
malaria parasite P. vivax - (species)
Plasmodium vivax
malaria parasite P. vivax - (species)
PVX_084940
Plasmodium vivax
malaria parasite P. vivax - (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
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
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
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
REC114
Recombination rate
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001661
REC114
Q7Z4M0
Physiology
On chromosome 10. Associated SNP located dowstream of the gene
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
REC114
Bos taurus
cattle - (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
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
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
RnrS
Xenobiotic resistance (gemcitabine ; female fertility)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Association Mapping
King EG; Kislukhin G; Walters KN ; et al. (2014)
Using Drosophila melanogaster to identify chemotherapy toxicity genes.
GP00001404
RnrS
P48592
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
RnrS
Drosophila melanogaster
fruit fly - (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
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
RREB1
Body fat distribution (visceral)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001555
RREB1
Q92766
Physiology
C>G in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
RREB1
Homo sapiens
human - (species)
Published - Accepted by Curator
RTA1
Xenobiotic resistance (citrinin)
Cis-regulatory,
Unknown
Saccharomyces paradoxus
(species) D
Domesticated
Association Mapping
Naranjo S; Smith JD; Artieri CG ; et al. (2015)
Dissecting the Genetic Basis of a Complex cis-Regulatory Adaptation.
GP00001312
RTA1
P53047
Physiology
unknown
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces paradoxus
(species) D
RTA1
Saccharomyces paradoxus
(species)
Published - Accepted by Curator
sage
Silk yield
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Xia Q; Guo Y; Zhang Z ; et al. (2009)
Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx).
GP00002410
sage
Q9VHG3
Physiology
Increased expression in high yield strains. The sage gene encodes a transcription factor that activates glue genes in salivary glands of Drosophila melanogaster.
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
sage
Bombyx mori
domestic silkworm - (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-2
Xenobiotic resistance (insecticide; pyrethroid)
Cis-regulatory,
Unknown
Anopheles gambiae
African malaria mosquito - (species) D
Intraspecific
Association Mapping
Ingham VA; Anthousi A; Douris V ; et al. (2020)
A sensory appendage protein protects malaria vectors from pyrethroids.
GP00002432
SAP-2
Q6H8Z3
Physiology
The gene is highly overexpressed in the appendages of pyrethroid-resistant mosquitoes and its expression is further induced by insecticide exposure. Silencing of SAP2 almost completely restored susceptibility to the pyrethroid deltamethrin and also significantly increased the susceptibility to the other two pyrethroids (permethrin and alpha-cypermethrin).
Anopheles gambiae
African malaria mosquito - (species)
Anopheles gambiae
African malaria mosquito - (species) D
SAP-2
Anopheles gambiae
African malaria mosquito - (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
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
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
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
SGLT1
Starch processing
Coding,
Unknown
Canis lupus familiaris
dog - (subspecies)
Domesticated
Association Mapping
Axelsson E; Ratnakumar A; Arendt ML ; et al. (2013)
The genomic signature of dog domestication reveals adaptation to a starch-rich diet.
GP00001037
Slc5a1
Q9QXI6
Physiology
unknown
Canis lupus
gray wolf - (species)
Canis lupus familiaris
dog - (subspecies)
SGLT1
Canis lupus familiaris
dog - (subspecies)
Published - Accepted by Curator
Shattering1 - ZmSh1-5.1 + ZmSh1-5.2
Seed shattering
Coding,
Unknown
Zea mays
(species)
Domesticated
Association Mapping
Lin Z; Li X; Shannon LM ; et al. (2012)
Parallel domestication of the Shattering1 genes in cereals.
GP00001044
YAB2
Q10FZ7
Physiology
various structural variations
Zea mays
(species)
Zea mays
(species)
Shattering1 - ZmSh1-5.1 + ZmSh1-5.2
Zea mays
(species)
Published - Accepted by Curator
shattering4 - sh4
Seed shattering
Cis-regulatory,
Unknown
Oryza glaberrima
African rice - (species) D
Domesticated
Association Mapping
Wang M; Yu Y; Haberer G ; et al. (2014)
The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication.
GP00001045
sh4
Q1PIH9
Physiology
several candidate mutations: ten SNPs and five small insertion/deletions leading to reduced expression
Oryza barthii
(species)
Oryza glaberrima
African rice - (species) D
shattering4 - sh4
Oryza glaberrima
African rice - (species)
Published - Accepted by Curator
sid-2
Immune response (RNAi efficiency)
Unknown,
Unknown
Caenorhabditis elegans
(species)
Interspecific
Candidate Gene
Winston WM; Sutherlin M; Wright AJ ; et al. (2007)
Caenorhabditis elegans SID-2 is required for environmental RNA interference.
GP00001051
sid-2
G5EEV9
Physiology
unknown
Caenorhabditis
(genus)
Caenorhabditis elegans
(species)
sid-2
Caenorhabditis elegans
(species)
Published - Accepted by Curator
SMC3
Recombination rate (female)
Unknown,
Unknown
Bos taurus
cattle - (species)
Domesticated
Association Mapping
Ma L; O'Connell JR; VanRaden PM ; et al. (2015)
Cattle Sex-Specific Recombination and Genetic Control from a Large Pedigree Analysis.
GP00001666
SMC3
O97594
Physiology
On chromosome 26. Associated SNP located upstream
Bos taurus
cattle - (species)
Bos taurus
cattle - (species)
SMC3
Bos taurus
cattle - (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
SOD3
Oxidative stress resistance
Blood pressure
Unknown,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Intraspecific
Association Mapping
Jones FC; Chan YF; Schmutz J ; et al. (2012)
A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence i[...]
GP00001380
SOD3
P08294
Physiology
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species)
SOD3
Gasterosteus aculeatus
three-spined stickleback - (species)
Published - Accepted by Curator
Sox5/6
Coloration (wing; mimicry)
Cis-regulatory,
Unknown
Hypolimnas misippus
(species)
Intraspecific
Association Mapping
VanKuren NW; Massardo D; Nallu S ; et al. (2019)
Butterfly Mimicry Polymorphisms Highlight Phylogenetic Limits of Gene Reuse in the Evolution of Dive[...]
GP00002429
Morphology
A 10 kb intergenic region located 48kb upstream of the Sox5/6 gene is strongly associated with the wing phenotype. This cis-regulatory change may also affect another neighboring gene, such as pink.
Hypolimnas misippus
(species)
Hypolimnas misippus
(species)
Sox5/6
Hypolimnas misippus
(species)
Published - Accepted by Curator
SPR
Coloration (ventral scales)
Cis-regulatory,
Unknown
Podarcis muralis
Common wall lizard - (species)
Intraspecific
Association Mapping
Andrade P; Pinho C; Pérez I de Lanuza G ; et al. (2019)
Regulatory changes in pterin and carotenoid genes underlie balanced color polymorphisms in the wall [...]
GP00002119
Spr
Q64105
Morphology
Podarcis muralis
Common wall lizard - (species)
Podarcis muralis
Common wall lizard - (species)
SPR
Podarcis muralis
Common wall lizard - (species)
Published - Accepted by Curator
SR-CII
Pathogen resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Lazzaro BP; Sackton TB; Clark AG (2006)
Genetic variation in Drosophila melanogaster resistance to infection: a comparison across bacteria.
GP00001071
Sr-CII
Q5ELW9
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
SR-CII
Drosophila melanogaster
fruit fly - (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
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
sulfate transporter 1;1
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001429
SULTR1;1
Q9SAY1
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
sulfate transporter 1;1
Arabidopsis arenosa
(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
Svb/ovo
Trichome pattern (larva)
Cis-regulatory,
Unknown
Drosophila ezoana
(species)
Interspecific
Candidate Gene
Frankel N; Wang S; Stern DL (2012)
Conserved regulatory architecture underlies parallel genetic changes and convergent phenotypic evolu[...]
1 Additional References
GP00001086
ovo
P51521
Morphology
unknown
virilis group
(species group)
Drosophila ezoana
(species)
Svb/ovo
Drosophila ezoana
(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
syntaxin1a
Eusociality
Cis-regulatory,
Unknown
Lasioglossum albipes
(species) D
Intraspecific
Association Mapping
Kocher SD; Mallarino R; Rubin BER ; et al. (2018)
The genetic basis of a social polymorphism in halictid bees.
GP00002624
Syx1A
Q24547
Behavior
Increased expression in eusocial individuals compared to solitary individuals
Lasioglossum albipes
(species)
Lasioglossum albipes
(species) D
syntaxin1a
Lasioglossum albipes
(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 (thorax; abdomen; trident)
Cis-regulatory,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Intraspecific
Association Mapping
Bastide H; Betancourt A; Nolte V ; et al. (2013)
A genome-wide, fine-scale map of natural pigmentation variation in Drosophila melanogaster.
3 Additional References
GP00002622
t
Q9W369
Morphology
exact causing mutation(s) unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
tan
Drosophila melanogaster
fruit fly - (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
TAS1R1
Taste sensitivity (sugar)
Coding,
Unknown
Calypte anna
Anna's hummingbird - (species) D
Interspecific
Candidate Gene
Baldwin MW; Toda Y; Nakagita T ; et al. (2014)
Sensory biology. Evolution of sweet taste perception in hummingbirds by transformation of the ancest[...]
GP00001307
T1R1
A0A088DBT6
Physiology
unknown
Gallus gallus
chicken - (species)
Calypte anna
Anna's hummingbird - (species) D
TAS1R1
Calypte anna
Anna's hummingbird - (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
Tehao
Pathogen resistance
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species)
Intraspecific
Candidate Gene
Lazzaro BP; Sackton TB; Clark AG (2006)
Genetic variation in Drosophila melanogaster resistance to infection: a comparison across bacteria.
GP00001115
Tehao
Q9VJX9
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species)
Tehao
Drosophila melanogaster
fruit fly - (species)
Published - Accepted by Curator
teosinte branched 1 (tb1) = IntC
Plant architecture
Inflorescence architecture
Coding,
Unknown
Hordeum vulgare
(species)
Domesticated
Association Mapping
Ramsay L; Comadran J; Druka A ; et al. (2011)
INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domes[...]
GP00001117
TB1
Q93WI2
Morphology
Morphology
Large haplotypes; unknown
Hordeum vulgare
(species)
Hordeum vulgare
(species)
teosinte branched 1 (tb1) = IntC
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
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
thyroid-stimulating hormone-beta-2
Metabolic rate
Thyroid Hormone (plasma concentration)
Cis-regulatory,
Unknown
Gasterosteus aculeatus
three-spined stickleback - (species) D
Intraspecific
Candidate Gene
Kitano J; Lema SC; Luckenbach JA ; et al. (2010)
Adaptive divergence in the thyroid hormone signaling pathway in the stickleback radiation.
GP00001288
tshba
B3DJU0
Physiology
Physiology
unknown
Gasterosteus aculeatus
three-spined stickleback - (species)
Gasterosteus aculeatus
three-spined stickleback - (species) D
thyroid-stimulating hormone-beta-2
Gasterosteus aculeatus
three-spined stickleback - (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
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
trehalase
Coloration (wing; seasonal)
Cis-regulatory,
Unknown
Junonia coenia
buckeye - (species) D
Experimental Evolution
Association Mapping
van der Burg KRL; Lewis JJ; Brack BJ ; et al. (2020)
Genomic architecture of a genetically assimilated seasonal color pattern.
GP00002421
Treh
Q9W2M2
Morphology
Increased expression of the trehalase gene in the Red line. No variation in coding region. Strong association with cis-regulatory SNP.
Junonia coenia
buckeye - (species)
Junonia coenia
buckeye - (species) D
trehalase
Junonia coenia
buckeye - (species)
Published - Accepted by Curator
Tret1-like
Diapause
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Association Mapping
Tong X; Han MJ; Lu K ; et al. (2022)
High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecologic[...]
GP00002402
Tret1-1
A1Z8N1
Physiology
The expression level of BmTret1-like in homozygotes (pnd/pnd) is significantly lower (p < 0.01, t test) than that in heterozygotes (pnd/+). CRISPR BmTret1-like knockout lines generate non-diapause eggs. A 747 bp deletion is present in the 3′-untranslated region (3′-UTR) of BmTret1-like in pnd homozygotes
Bombyx mori
domestic silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Tret1-like
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
TRIB2
Body fat distribution (pericardial)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001559
TRIB2
Q92519
Physiology
A>G in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
TRIB2
Homo sapiens
human - (species)
Published - Accepted by Curator
Trichohyalin
Hair type (straight)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Medland SE; Nyholt DR; Painter JN ; et al. (2009)
Common variants in the trichohyalin gene are associated with straight hair in Europeans.
GP00001134
TCHH
Q07283
Morphology
Not identified
Homo sapiens
human - (species)
Homo sapiens
human - (species)
Trichohyalin
Homo sapiens
human - (species)
Published - Accepted by Curator
TRIP11 (=GMAP-210)
Body size (height)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Lettre G (2011)
Recent progress in the study of the genetics of height.
GP00001138
TRIP11
Q15643
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
TRIP11 (=GMAP-210)
Homo sapiens
human - (species)
Published - Accepted by Curator
two pore channel
Xenobiotic resistance (soil contamination; serpentine)
Unknown,
Unknown
Arabidopsis arenosa
(species) D
Intraspecific
Association Mapping
Arnold BJ; Lahner B; DaCosta JM ; et al. (2016)
Borrowed alleles and convergence in serpentine adaptation.
GP00001433
TPC1
Q94KI8
Physiology
unknown
Arabidopsis arenosa
(species)
Arabidopsis arenosa
(species) D
two pore channel
Arabidopsis arenosa
(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-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 (eyes; hair; skin)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Frudakis T; Thomas M; Gaskin Z ; et al. (2003)
Sequences associated with human iris pigmentation.
1 Additional References
GP00001157
Tyrp1
P07147
Morphology
unknown
Homo sapiens
human - (species)
Homo sapiens
human - (species)
tyrosinase-related protein 1 (TYRP1)
Homo sapiens
human - (species)
Published - Accepted by Curator
Tyrosine hydroxylase
Coloration (body)
Cis-regulatory,
Unknown
Bombyx mori
domestic silkworm - (species) D
Domesticated
Candidate Gene
Yu HS; Shen YH; Yuan GX ; et al. (2011)
Evidence of selection at melanin synthesis pathway loci during silkworm domestication.
GP00001158
ple
P18459
Morphology
Variation in intron; possibly loss of AbdA binding site
Bombyx mandarina
wild silkworm - (species)
Bombyx mori
domestic silkworm - (species) D
Tyrosine hydroxylase
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
UBE2E2
Body fat distribution (visceral/subcutaneous ratio)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Chu AY; Deng X; Fisher VA ; et al. (2017)
Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyt[...]
GP00001553
UBE2E2
Q96LR5
Physiology
T>C in associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
UBE2E2
Homo sapiens
human - (species)
Published - Accepted by Curator
Ubiquitin conjugating enzyme E2H (Ubc-E2H)
Pathogen resistance (Drosophila C virus & cricket paralysis virus)
Unknown,
Unknown
Drosophila melanogaster
fruit fly - (species) D
Experimental Evolution
Association Mapping
Martins NE; Faria VG; Nolte V ; et al. (2014)
Host adaptation to viruses relies on few genes with different cross-resistance properties.
GP00001480
UbcE2H
Q7JW03
Physiology
unknown
Drosophila melanogaster
fruit fly - (species)
Drosophila melanogaster
fruit fly - (species) D
Ubiquitin conjugating enzyme E2H (Ubc-E2H)
Drosophila melanogaster
fruit fly - (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
Ultrabithorax (Ubx)
Trichome pattern (leg)
Cis-regulatory,
Unknown
Drosophila simulans
(species)
Interspecific
Candidate Gene
Stern DL (1998)
A role of Ultrabithorax in morphological differences between Drosophila species.
GP00001161
Ubx
P83949
Morphology
Not identified
Drosophila melanogaster
fruit fly - (species)
Drosophila simulans
(species)
Ultrabithorax (Ubx)
Drosophila simulans
(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
VGLL3 (vestigial-like family member 3 gene )
Age of sexual maturity
Unknown,
Unknown
Salmo salar
Atlantic salmon - (species)
Intraspecific
Association Mapping
Barson NJ; Aykanat T; Hindar K ; et al. (2015)
Sex-dependent dominance at a single locus maintains variation in age at maturity in salmon.
1 Additional References
GP00001167
VGLL3
A8MV65
Physiology
candidate amino-acid substitutions
Salmo salar
Atlantic salmon - (species)
Salmo salar
Atlantic salmon - (species)
VGLL3 (vestigial-like family member 3 gene )
Salmo salar
Atlantic salmon - (species)
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
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
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
WDR66
Hematopoiesis (mean blood platelet volume)
Unknown,
Unknown
Homo sapiens
human - (species)
Intraspecific
Association Mapping
Guo MH; Nandakumar SK; Ulirsch JC ; et al. (2017)
Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mech[...]
GP00001604
WDR66
Q8TBY9
Physiology
A>G at the associated SNP
Homo sapiens
human - (species)
Homo sapiens
human - (species)
WDR66
Homo sapiens
human - (species)
Published - Accepted by Curator
wingless (wg)
Coloration (wing)
3 Mutations:
Cis-regulatory
Unknown
Drosophila guttifera
(species) D
Interspecific
Candidate Gene
Koshikawa S; Giorgianni MW; Vaccaro K ; et al. (2015)
Gain of cis-regulatory activities underlies novel domains of wingless gene expression in Drosophila.
1 Additional References
GP00001384
wg
P09615
Morphology
3 mutations
Drosophila melanogaster
fruit fly - (species)
Drosophila guttifera
(species) D
wingless (wg)
Drosophila guttifera
(species)
Published - Accepted by Curator
Wnt receptor
Fin morphology (skeleton; dorsal fin)
Cis-regulatory,
Unknown
Carassius auratus
goldfish - (species) D
Domesticated
Association Mapping
Kon T; Omori Y; Fukuta K ; et al. (2020)
The Genetic Basis of Morphological Diversity in Domesticated Goldfish.
GP00002347
Lrp6
O88572
Morphology
Lrp6 gene expression is reduced in goldfish with the dorsal fin loss phenotype. Only four amino acid substitutions in the coding region and all of them are conserved or semi-conserved in zebrafish or medaka lrp6 orthologs. There is a 313-bp deletion in intron 21 of lrp6S in goldfish with the dorsal fin loss phenotype. This intronic deletion may affect induction and proper production of lrp6S mRNA at embryonic stages.
Carassius auratus
goldfish - (species)
Carassius auratus
goldfish - (species) D
Wnt receptor
Carassius auratus
goldfish - (species)
Published - Accepted by Curator
WntA
Coloration (wing, Mullerian mimicry)
Cis-regulatory,
Unknown
Heliconius erato
crimson-patched longwing - (species)
Intraspecific
Association Mapping
Martin A; Papa R; Nadeau NJ ; et al. (2012)
Diversification of complex butterfly wing patterns by repeated regulatory evolution of a Wnt ligand.
GP00001205
WntA
A0A077DF90
Morphology
unknown
Heliconius erato
crimson-patched longwing - (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 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,
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 (abdomen)
Cis-regulatory,
Unknown
Drosophila kikkawai
(species)
Interspecific
Candidate Gene
Jeong S; Rokas A; Carroll SB (2006)
Regulation of body pigmentation by the Abdominal-B Hox protein and its gain and loss in Drosophila e[...]
GP00001220
y
P09957
Morphology
indel and/or SNP located within a cis-regulatory element
Drosophila melanogaster
fruit fly - (species)
Drosophila kikkawai
(species)
yellow
Drosophila kikkawai
(species)
Published - Accepted by Curator
yellow
Coloration (wing spot)
Cis-regulatory,
Unknown
Drosophila biarmipes
(species) D
Interspecific
Candidate Gene
Gompel N; Prud'homme B; Wittkopp PJ ; et al. (2005)
Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila[...]
GP00001222
y
P09957
Morphology
wing spot activator element; within a 196bp fragment; sequences required for activation in the spot are located within or overlap with bp 425-453
Drosophila
(subgenus)
Drosophila biarmipes
(species) D
yellow
Drosophila biarmipes
(species)
Published - Accepted by Curator
yellow
Coloration (wing spot)
Cis-regulatory,
Unknown
Drosophila biarmipes
(species) D
Interspecific
Candidate Gene
Gompel N; Prud'homme B; Wittkopp PJ ; et al. (2005)
Chance caught on the wing: cis-regulatory evolution and the origin of pigment patterns in Drosophila[...]
GP00001223
y
P09957
Morphology
wing spot repressor element; within a 675-bp fragment;
Drosophila
(subgenus)
Drosophila biarmipes
(species) D
yellow
Drosophila biarmipes
(species)
Published - Accepted by Curator
yellow
Coloration (wing spot)
Cis-regulatory,
Unknown
Drosophila mimetica
(species)
Interspecific
Candidate Gene
Prud'homme B; Gompel N; Rokas A ; et al. (2006)
Repeated morphological evolution through cis-regulatory changes in a pleiotropic gene.
GP00001224
y
P09957
Morphology
within a 740bp-element
Drosophila
(subgenus)
Drosophila mimetica
(species)
yellow
Drosophila mimetica
(species)
Published - Accepted by Curator
yellow
Coloration (wing spot)
Cis-regulatory,
Unknown
Drosophila tristis
(species)
Interspecific
Candidate Gene
Prud'homme B; Gompel N; Rokas A ; et al. (2006)
Repeated morphological evolution through cis-regulatory changes in a pleiotropic gene.
GP00001225
y
P09957
Morphology
within a 927 bp-element
Drosophila
(subgenus)
Drosophila tristis
(species)
yellow
Drosophila tristis
(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
yellow
Coloration (wing)
Cis-regulatory,
Unknown
Danaus chrysippus
African queen - (species)
Intraspecific
Association Mapping
Martin SH; Singh KS; Gordon IJ ; et al. (2020)
Whole-chromosome hitchhiking driven by a male-killing endosymbiont.
GP00002430
y
P09957
Morphology
A cluster of SNPs most strongly associated with background colour (B locus) is found just upstream of the gene yellow and a phylogenetic network for a 30-kb region around yellow groups individuals nearly perfectly by phenotype; although some individuals classed as heterozygous were intermingled with homozygotes.
Danaus chrysippus
African queen - (species)
Danaus chrysippus
African queen - (species)
yellow
Danaus chrysippus
African queen - (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