Gephebase

Gephebase Search Results

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Gene	Trait	Mutation	Taxon B	Taxonomic Status	Evidence	Main Reference	Gephe ID	UniProtKB	Trait Category	Mutation Details	Taxon A	Taxon B	Edit Gene-GePhe	Taxon B	Status	Date of Sent Email
ABCA1	Coloration (feathers) Cholesterol metabolism	Coding, SNP N	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Attie AD; Hamon Y; Brooks-Wilson AR ; et al. (2002) Identification and functional analysis of a naturally occurring E89K mutation in the ABCA1 gene of t[...]	GP00001682	Abca1 P41233	Morphology; Physiology Morphology; Physiology	amino acid substitution at a residue that is conserved in the ABCA1 gene between human; mouse; chicken; and Takifugu rubripes. Generation of a mouse ABCA1 protein with the mutation disrupts protein function. N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	ABCA1	Gallus gallus chicken - (species)	Published - Accepted by Curator
ABCA2	Xenobiotic resistance (insecticide; Bt Cry2Ab toxin)	Coding, Indel N	Helicoverpa armigera cotton bollworm - (species) D	Intraspecific	Linkage Mapping	Tay WT; Mahon RJ; Heckel DG ; et al. (2015) Insect Resistance to Bacillus thuringiensis Toxin Cry2Ab Is Conferred by Mutations in an ABC Transpo[...]	GP00000002	ABCA2 A0A0S0G7V0	Physiology	65bp indel in exon16 inducing a frameshift N	Helicoverpa armigera cotton bollworm - (species)	Helicoverpa armigera cotton bollworm - (species) D	ABCA2	Helicoverpa armigera cotton bollworm - (species)	Published - Accepted by Curator
ABCA2	Xenobiotic resistance (insecticide; Bt Cry2Ab toxin)	Coding, Insertion N	Trichoplusia ni cabbage looper - (species) D	Intraspecific	Linkage Mapping	Yang X; Chen W; Song X ; et al. (2019) Mutation of ABC transporter ABCA2 confers resistance to Bt toxin Cry2Ab in Trichoplusia ni.	GP00002054	ABCA2 A0A0S0G7V0	Physiology	insertion of a transposon Tntransib (2581 bp) in ABCA2 which changes splicing sites in the transcript and lead to an indel in the coding region: change of 1551VETLAHALGFLRHLDKR1567 into 1551AHWGK- LYGSNTQN1563 N	Trichoplusia ni cabbage looper - (species)	Trichoplusia ni cabbage looper - (species) D	ABCA2	Trichoplusia ni cabbage looper - (species)	Published - Accepted by Curator
ABCA2	Xenobiotic resistance (insecticide; Bt Cry2Ab)	Coding, Insertion N	Trichoplusia ni cabbage looper - (species) D	Intraspecific	Linkage Mapping	Yang X; Chen W; Song X ; et al. (2019) Mutation of ABC transporter ABCA2 confers resistance to Bt toxin Cry2Ab in Trichoplusia ni.	GP00002467	ABCA2 Q9BZC7	Physiology	insertion of a 2581-bp transposon Tntransib in ABCA2. This insertion disrupts splicing sites and leads to indels in the protein sequence. CRISPR ABCA2 mutants are highly resistant to Cry2Ab. N	Trichoplusia ni cabbage looper - (species)	Trichoplusia ni cabbage looper - (species) D	ABCA2	Trichoplusia ni cabbage looper - (species)	Published - Accepted by Curator
ABCB1	Plant size (dwarfism)	Unknown, Unknown	Cenchrus americanus (species)	Domesticated	Linkage Mapping	Parvathaneni RK; Jakkula V; Padi FK ; et al. (2013) Fine-mapping and identification of a candidate gene underlying the d2 dwarfing phenotype in pearl mi[...]	GP00000006	ABCB1 Q9ZR72	Morphology	unknown	Cenchrus americanus (species)	Cenchrus americanus (species)	ABCB1	Cenchrus americanus (species)	Published - Accepted by Curator
ABCC2	Xenobiotic resistance (insecticide)	Coding, Insertion	Bombyx mori domestic silkworm - (species) D	Domesticated	Linkage Mapping	Atsumi S; Miyamoto K; Yamamoto K ; et al. (2012) Single amino acid mutation in an ATP-binding cassette transporter gene causes resistance to Bt toxin[...]	GP00000011	ABCC2 A0A0E3ZDK3	Physiology	1a.a. insertion at codon 234 (Tyr)	Bombyx mori domestic silkworm - (species)	Bombyx mori domestic silkworm - (species) D	ABCC2	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
ABCC2	Xenobiotic resistance (insecticide)	Coding, Deletion N	Heliothis virescens tobacco budworm - (species) D	Intraspecific	Linkage Mapping	Gahan LJ; Pauchet Y; Vogel H ; et al. (2010) An ABC transporter mutation is correlated with insect resistance to Bacillus thuringiensis Cry1Ac to[...]	GP00000012	ABCC2 A0A0E3ZDK3	Physiology	22bp deletion N	Heliothis virescens tobacco budworm - (species)	Heliothis virescens tobacco budworm - (species) D	ABCC2	Heliothis virescens tobacco budworm - (species)	Published - Accepted by Curator
ABCC2	Xenobiotic resistance (insecticide)	Coding, Deletion N	Plutella xylostella diamondback moth - (species) D	Intraspecific	Linkage Mapping	Baxter SW; Badenes-Pérez FR; Morrison A ; et al. (2011) Parallel evolution of Bacillus thuringiensis toxin resistance in lepidoptera.	GP00000013	ABCC2 A0A0E3ZDK3	Physiology	30bp deletion N	Plutella xylostella diamondback moth - (species)	Plutella xylostella diamondback moth - (species) D	ABCC2	Plutella xylostella diamondback moth - (species)	Published - Accepted by Curator
ABCC2	Xenobiotic resistance (insecticide; Bt Cry1Ac)	Unknown, Unknown	Trichoplusia ni cabbage looper - (species) D	Intraspecific	Linkage Mapping	Baxter SW; Badenes-Pérez FR; Morrison A ; et al. (2011) Parallel evolution of Bacillus thuringiensis toxin resistance in lepidoptera.	GP00000014	ABCC2 A0A0E3ZDK3	Physiology	Not identified	Trichoplusia ni cabbage looper - (species)	Trichoplusia ni cabbage looper - (species) D	ABCC2	Trichoplusia ni cabbage looper - (species)	Published - Accepted by Curator
ABCC2	Xenobiotic resistance (insecticide; Bt toxins)	Coding, Deletion N	Spodoptera exigua beet armyworm - (species) D	Intraspecific	Linkage Mapping	Park Y; González-Martínez RM; Navarro-Cerrillo G ; et al. (2014) ABCC transporters mediate insect resistance to multiple Bt toxins revealed by bulk segregant analysi[...]	GP00001439		Physiology	About 500 nt genomic deletion over 2 exons involving 246 nt coding 82aa N	Spodoptera exigua beet armyworm - (species)	Spodoptera exigua beet armyworm - (species) D	ABCC2	Spodoptera exigua beet armyworm - (species)	Published - Accepted by Curator
ABCG2	Milk yield	Coding, SNP	Bos taurus cattle - (species)	Domesticated	Linkage Mapping	Cohen-Zinder M; Seroussi E; Larkin DM ; et al. (2005) Identification of a missense mutation in the bovine ABCG2 gene with a major effect on the QTL on chr[...] 1 Additional References Olsen HG; Nilsen H; Hayes B (2007) Genetic support for a quantitative trait nucleotide in the ABCG2 gene affecting milk composition of [...]	GP00000015	Abcg2 Q7TMS5	Physiology	Tyr581Ser	Bos taurus cattle - (species)	Bos taurus cattle - (species)	ABCG2	Bos taurus cattle - (species)	Published - Accepted by Curator
Abdominal-B	Coloration (male-specific)	Unknown, Unknown	Drosophila malerkotliana (species)	Intraspecific	Linkage Mapping	Signor SA; Liu Y; Rebeiz M ; et al. (2016) Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.	GP00001548	Abd-B P09087	Morphology	unknown	Drosophila malerkotliana (species)	Drosophila malerkotliana (species)	Abdominal-B	Drosophila malerkotliana (species)	Published - Accepted by Curator
Abdominal-B	Coloration (male-specific)	Unknown, Unknown	Drosophila merina (species)	Interspecific	Linkage Mapping	Signor SA; Liu Y; Rebeiz M ; et al. (2016) Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.	GP00001549	Abd-B P09087	Morphology	unknown	Drosophila ercepeae (species)	Drosophila merina (species)	Abdominal-B	Drosophila merina (species)	Published - Accepted by Curator
Abdominal-B	Coloration (abdomen; male)	Cis-regulatory, Unknown	Drosophila santomea (species) D	Interspecific	Linkage Mapping	Liu Y; Ramos-Womack M; Han C ; et al. (2019) Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution.	GP00002021	Abd-B P09087	Morphology	change in the iab5 cis-regulatory element (15kb long)- exact causing mutation(s) unknown - decreased AbdB abdominal expression	Drosophila yakuba (species)	Drosophila santomea (species) D	Abdominal-B	Drosophila santomea (species)	Published - Accepted by Curator
ACD6 = ACCELERATED CELL DEATH 6	Plant size Pathogen resistance (plant microbes) Herbivore resistance	Coding, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Todesco M; Balasubramanian S; Hu TT ; et al. (2010) Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana. 1 Additional References Atwell S; Huang YS; Vilhjálmsson BJ (2010) Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines.	GP00000025	ACD6 Q8LPS2	Physiology Physiology Physiology	Various	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	ACD6 = ACCELERATED CELL DEATH 6	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
acetyl-CoA carboxylase (ACC)	Xenobiotic resistance (insecticide; spirotetramat)	Coding, SNP	Caenorhabditis elegans (species) D	Experimental Evolution	Linkage Mapping	Guest M; Kriek N; Flemming AJ (2020) Studies of an insecticidal inhibitor of acetyl-CoA carboxylase in the nematode C. elegans.	GP00002617	ACC Q7JV23	Physiology	A1559V	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	acetyl-CoA carboxylase (ACC)	Caenorhabditis elegans (species)	Published - Accepted by Curator
acetyl-CoA carboxylase (ACC)	Xenobiotic resistance (insecticide; spirotetramat)	Coding, SNP	Caenorhabditis elegans (species) D	Experimental Evolution	Linkage Mapping	Guest M; Kriek N; Flemming AJ (2020) Studies of an insecticidal inhibitor of acetyl-CoA carboxylase in the nematode C. elegans.	GP00002618	ACC Q7JV23	Physiology	A1847V	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	acetyl-CoA carboxylase (ACC)	Caenorhabditis elegans (species)	Published - Accepted by Curator
achaete-scute complex	Bristle number (abdomen; female-limited)	Cis-regulatory, Insertion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Long AD; Lyman RF; Morgan AH ; et al. (2000) Both naturally occurring insertions of transposable elements and intermediate frequency polymorphism[...]	GP00000046	sc P10084	Morphology	transposon insertion in non-coding region	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	achaete-scute complex	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
achaete-scute complex	Bristle number (abdomen)	Cis-regulatory, Indel	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Long AD; Lyman RF; Morgan AH ; et al. (2000) Both naturally occurring insertions of transposable elements and intermediate frequency polymorphism[...]	GP00000047	sc P10084	Morphology	indel MC21 in promoter region of scute	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	achaete-scute complex	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
achaete-scute complex	Bristle number (thorax)	Cis-regulatory, Indel	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Gruber JD; Genissel A; Macdonald SJ ; et al. (2007) How repeatable are associations between polymorphisms in achaete-scute and bristle number variation [...]	GP00000048	sc P10084	Morphology	indel MC22 in promoter region of scute	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	achaete-scute complex	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
achaete-scute complex	Bristle number (genitalia; leg sex comb)	3 Mutations: Cis-regulatory SNP	Drosophila santomea (species) D	Interspecific	Linkage Mapping	Nagy O; Nuez I; Savisaar R ; et al. (2018) Correlated Evolution of Two Copulatory Organs via a Single cis-Regulatory Nucleotide Change.	GP00001680	sc P10084	Morphology	3 mutations	Drosophila yakuba (species)	Drosophila santomea (species) D	achaete-scute complex	Drosophila santomea (species)	Published - Accepted by Curator
AEP2	Hybrid Incompatibility (F2 sterility)	Coding, SNP	Saccharomyces bayanus (species)	Domesticated	Linkage Mapping	Lee HY; Chou JY; Cheong L ; et al. (2008) Incompatibility of nuclear and mitochondrial genomes causes hybrid sterility between two yeast speci[...]	GP00000051	AEP2 P22136	Physiology	The region between aa 348 and aa 496 plays a critical role. When this region was further dissected in the constructs H-AEP2-bcb and H-AEP2-m3; both failed to restore respiration in the Chromosome 13 line. This result suggests that multiple critical mutations have occurred during the functional diversification of Sc-AEP2 and Sb-AEP2. Exact causing mutation(s) not determined	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces bayanus (species)	AEP2	Saccharomyces bayanus (species)	Published - Accepted by Curator
AGAMOUS-Like6	Plant architecture Inflorescence architecture	Coding, SNP	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Huang X; Effgen S; Meyer RC ; et al. (2012) Epistatic natural allelic variation reveals a function of AGAMOUS-LIKE6 in axillary bud formation in[...]	GP00000053	AGL6 P29386	Morphology Morphology	Pro201Leu	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AGAMOUS-Like6	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
aggrecan	Body size (dwarfism)	Coding, Insertion N	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Cavanagh JA; Tammen I; Windsor PA ; et al. (2007) Bulldog dwarfism in Dexter cattle is caused by mutations in ACAN.	GP00002140	ACAN P16112	Morphology	2266_2267insGGCA mutation introduces a frameshift and a premature termination codon into exon 11; the frameshift occurs at amino acid position 756 ; the termination codon occurs at position 914 compared to the normal aggrecan product of 2327 amino acids N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	aggrecan	Bos taurus cattle - (species)	Published - Accepted by Curator
aggrecan	Body size (dwarfism)	Cis-regulatory, SNP N	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Cavanagh JA; Tammen I; Windsor PA ; et al. (2007) Bulldog dwarfism in Dexter cattle is caused by mutations in ACAN.	GP00002141	ACAN P16112	Morphology	−198C>T transition predicted to introduce a new ATG start codon 199 bp upstream of the normal start codon N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	aggrecan	Bos taurus cattle - (species)	Published - Accepted by Curator
Agouti	Coloration (coat; dorso-ventral)	Cis-regulatory, Unknown	Peromyscus polionotus leucocephalus (subspecies) D Peromyscus polionotus niveiventris (subspecies) D Peromyscus polionotus peninsularis (subspecies) D Peromyscus polionotus allophrys (subspecies) D Peromyscus polionotus trissyllepsis (subspecies) D Peromyscus polionotus ammobates (subspecies) D Peromyscus polionotus albifrons (subspecies) D Peromyscus polionotus subgriseus (subspecies) D	Intraspecific	Linkage Mapping	Manceau M; Domingues VS; Mallarino R ; et al. (2011) The developmental role of Agouti in color pattern evolution. 1 Additional References Wooldridge TB; Kautt AF; Lassance JM (2022) An enhancer of Agouti contributes to parallel evolution of cryptically colored beach mice.	GP00000057	Asip Q03288	Morphology	"A closer investigation of this region revealed three SNPs significantly associated with pigment variation, spanning 1,756 bp, in strong linkage disequilibrium (mean r2 = 0.85). A single SNP on chromosome 4 (chr4) at position chr4: 9,845,301 showed a markedly stronger association with pPC1 than the other two (Fig. 3B). This SNP is located between two untranslated exons (exons 1D and 1E), is 120 bp upstream of a cluster of Short Interspersed Nuclear Elements (SINE) in reverse orientation relative to the transcription of Agouti, and is 5,641 bp upstream of the first coding exon (exon 2). " "Next, we employ an association-mapping approach to identify an ∼2-kb previously uncharacterized noncoding region of Agouti associated with color variation. We then show that this 2-kb region can drive dermal expression in Mus embryos, demonstrating its regulatory activity in the skin during the establishment of pigmentation."	Peromyscus polionotus subgriseus (subspecies) Peromyscus polionotus polionotus (subspecies) Peromyscus polionotus albifrons (subspecies)	Peromyscus polionotus leucocephalus (subspecies) D Peromyscus polionotus niveiventris (subspecies) D Peromyscus polionotus peninsularis (subspecies) D Peromyscus polionotus allophrys (subspecies) D Peromyscus polionotus trissyllepsis (subspecies) D Peromyscus polionotus ammobates (subspecies) D Peromyscus polionotus albifrons (subspecies) D Peromyscus polionotus subgriseus (subspecies) D	Agouti	Peromyscus polionotus leucocephalus (subspecies) Peromyscus polionotus niveiventris (subspecies) Peromyscus polionotus peninsularis (subspecies) Peromyscus polionotus allophrys (subspecies) Peromyscus polionotus trissyllepsis (subspecies) Peromyscus polionotus ammobates (subspecies) Peromyscus polionotus albifrons (subspecies) Peromyscus polionotus subgriseus (subspecies)	Published - Accepted by Curator
Agouti	Coloration (coat; dorso-ventral)	Cis-regulatory, Unknown	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Drögemüller C; Giese A; Martins-Wess F ; et al. (2006) The mutation causing the black-and-tan pigmentation phenotype of Mangalitza pigs maps to the porcine[...]	GP00000058	Asip Q03288	Morphology	unknown	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	Agouti	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
Agouti	Coloration (coat)	Coding, Deletion N	Equus caballus horse - (species) D	Intraspecific	Linkage Mapping	Rieder S; Taourit S; Mariat D ; et al. (2001) Mutations in the agouti (ASIP), the extension (MC1R), and the brown (TYRP1) loci and their associati[...] 1 Additional References Pruvost M; Bellone R; Benecke N (2011) Genotypes of predomestic horses match phenotypes painted in Paleolithic works of cave art.	GP00000062	Asip Q03288	Morphology	11bp deletion in exon 2: g.2174_2184del11 c.191_201del N	Equus caballus horse - (species)	Equus caballus horse - (species) D	Agouti	Equus caballus horse - (species)	Published - Accepted by Curator
Agouti	Coloration (coat)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Linkage Mapping	Eizirik E; Yuhki N; Johnson WE ; et al. (2003) Molecular genetics and evolution of melanism in the cat family.	GP00000063	Asip Q03288	Morphology	Deletion of nt 123-124 N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	Agouti	Felis catus domestic cat - (species)	Published - Accepted by Curator
Agouti	Coloration (feathers)	Coding, Deletion N	Coturnix japonica Japanese quail - (species) D	Domesticated	Linkage Mapping	Hiragaki T; Inoue-Murayama M; Miwa M ; et al. (2008) Recessive black is allelic to the yellow plumage locus in Japanese quail and associated with a frame[...]	GP00000068	Asip Q03288	Morphology	8bp frameshift deletion N	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species) D	Agouti	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
Agouti	Coloration (feathers)	Cis-regulatory, Deletion	Coturnix japonica Japanese quail - (species) D	Domesticated	Linkage Mapping	Nadeau NJ; Minvielle F; Ito S ; et al. (2008) Characterization of Japanese quail yellow as a genomic deletion upstream of the avian homolog of the[...] 1 Additional References Robic A; Morisson M; Leroux S (2019) Two new structural mutations in the 5' region of the ASIP gene cause diluted feather color phenotype[...]	GP00000069	Asip Q03288	Morphology	141162-bp deletion resulting in novel promoter sharing and expression of a RALY-ASIP fusion transcript	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species) D	Agouti	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
Agouti	Coloration (feathers)	Gene Amplification, Insertion	Coturnix japonica Japanese quail - (species) D	Domesticated	Linkage Mapping	Robic A; Morisson M; Leroux S ; et al. (2019) Two new structural mutations in the 5' region of the ASIP gene cause diluted feather color phenotype[...]	GP00001973	Asip Q03288	Morphology	71-kb tandem duplication that comprises one unchanged copy of ASIP and one copy present in the ITCH-ASIP fusion gene which leads to a transcript coding for a normal ASIP protein	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species) D	Agouti	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
Agouti (ASIP)	Coloration (coat) Lifespan	2 Mutations: Coding N	Ovis aries sheep - (species) D	Intraspecific	Linkage Mapping	Gratten J; Pilkington JG; Brown EA ; et al. (2010) The genetic basis of recessive self-colour pattern in a wild sheep population. 1 Additional References Gratten J; Pilkington JG; Brown EA (2012) Selection and microevolution of coat pattern are cryptic in a wild population of sheep.	GP00001356	Asip Q03288	Morphology Physiology	2 mutations	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	Agouti (ASIP)	Ovis aries sheep - (species)	Published - Accepted by Curator
Agouti-related peptide 2 (agrp2)	Coloration (stripes)	Cis-regulatory, Unknown	Haplochromis sauvagei (species) Haplochromis chilotes (species)	Interspecific	Linkage Mapping	Kratochwil CF; Liang Y; Gerwin J ; et al. (2018) Agouti-related peptide 2 facilitates convergent evolution of stripe patterns across cichlid fish rad[...] 1 Additional References Kratochwil CF; Liang Y; Urban S (2019) Evolutionary Dynamics of Structural Variation at a Key Locus for Color Pattern Diversification in Ci[...]	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 Kratochwil CF; Liang Y; Urban S (2019) Evolutionary Dynamics of Structural Variation at a Key Locus for Color Pattern Diversification in Ci[...]	GP00001960	asip2b J3JQX9	Morphology	Causal mutation(s) are in a 1.1-kb interval within the first agrp2 intron	Pundamilia nyererei (species)	Haplochromis sauvagei (species) Haplochromis chilotes (species)	Agouti-related peptide 2 (agrp2)	Haplochromis sauvagei (species) Haplochromis chilotes (species)	Published - Accepted by Curator
AHR	Xenobiotic resistance (polycyclic aromatic hydrocarbons; TCDD)	Coding, SNP	Mus musculus house mouse - (species)	Domesticated	Linkage Mapping	Poland A; Palen D; Glover E (1994) Analysis of the four alleles of the murine aryl hydrocarbon receptor.	GP00001810	Ahr P30561	Physiology	alanine at position 375 mutated into valine; decreases the affinity 4-fold	Mus musculus house mouse - (species)	Mus musculus house mouse - (species)	AHR	Mus musculus house mouse - (species)	Published - Accepted by Curator
AHR	Xenobiotic resistance (TCDD)	Coding, SNP N	Rattus norvegicus Norway rat - (species) D	Intraspecific	Linkage Mapping	Tuomisto JT; Viluksela M; Pohjanvirta R ; et al. (1999) The AH receptor and a novel gene determine acute toxic responses to TCDD: segregation of the resista[...] 2 Additional References Moffat ID; Roblin S; Harper PA (2007) Aryl hydrocarbon receptor splice variants in the dioxin-resistant rat: tissue expression and transac[...] Pohjanvirta R; Wong JM; Li W (1998) Point mutation in intron sequence causes altered carboxyl-terminal structure in the aryl hydrocarbon[...]	GP00001813	Ahr P30561	Physiology	point mutation in the exon/intron 10 boundary in AHR genomic structure that leads to use of 3 alternative cryptic splice sites; potentially creating 3 alternative transcripts and 2 protein products. At the protein level the mutation leads to a total loss of either 43 or 38 amino acids (with altered sequence for the last seven amino acids in the latter case) toward the carboxyl-terminal end in the trans-activation domain of the AhR. H/W rats also harbor a point mutation in exon 10 that will cause a Val-to-Ala substitution in codon 497, but this occurs in a variable region of the AhR N	Rattus norvegicus Norway rat - (species)	Rattus norvegicus Norway rat - (species) D	AHR	Rattus norvegicus Norway rat - (species)	Published - Accepted by Curator
AIM22	F2 lethality	Coding, SNP	Saccharomyces bayanus (species)	Interspecific	Linkage Mapping	Chou JY; Hung YS; Lin KH ; et al. (2010) Multiple molecular mechanisms cause reproductive isolation between three yeast species.	GP00000073	AIM22 P47051	Physiology	Several candidate non-synonymous changes - exact causing mutation(s) unknown	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces bayanus (species)	AIM22	Saccharomyces bayanus (species)	Published - Accepted by Curator
alcohol dehydrogenase (Adh)	Xenobiotic resistance (alcohol)	6 Mutations:	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Choudhary M; Laurie CC (1991) Use of in vitro mutagenesis to analyze the molecular basis of the difference in Adh expression assoc[...] 4 Additional References Laurie CC; Bridgham JT; Choudhary M (1991) Associations between DNA sequence variation and variation in expression of the Adh gene in natural p[...] King EG; Merkes CM; McNeil CL (2012) Genetic dissection of a model complex trait using the Drosophila Synthetic Population Resource. Siddiq MA; Loehlin DW; Montooth KL (2017) Experimental test and refutation of a classic case of molecular adaptation in Drosophila melanogaste[...] Loehlin DW; Ames JR; Vaccaro K (2019) A major role for noncoding regulatory mutations in the evolution of enzyme activity.	GP00001962	Adh P00334	Physiology	6 mutations	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	alcohol dehydrogenase (Adh)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
alcohol dehydrogenase (Adh)	Xenobiotic resistance (alcohol)	Coding, Unknown	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Vigue C; Sofer W (1974) Adh-n5: a temperature-sensitive mutant at the Adh locus in Drosophila.	GP00001988	Adh P00334	Physiology	Activity of the purified enzyme is temperature-sensitive; as opposed to the other allele which is not. Exact coding mutation(s) unknown.	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	alcohol dehydrogenase (Adh)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Aldehyde dehydrogenase (Aldh)	Xenobiotic resistance (alcohol)	Coding, SNP	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Fry JD; Donlon K; Saweikis M (2008) A worldwide polymorphism in aldehyde dehydrogenase in Drosophila melanogaster: evidence for selectio[...]	GP00002007	Aldh Q9VLC5	Physiology	L479F C9391311T	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Aldehyde dehydrogenase (Aldh)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Alk / Starch Synthase II	Grain cooking texture	4 Mutations: Coding SNP	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Umemoto T; Yano M; Satoh H ; et al. (2002) Mapping of a gene responsible for the difference in amylopectin structure between japonica-type and [...] 2 Additional References Nakamura Y; Francisco PB; Hosaka Y (2005) Essential amino acids of starch synthase IIa differentiate amylopectin structure and starch quality [...] Huang X; Wei X; Sang T (2010) Genome-wide association studies of 14 agronomic traits in rice landraces.	GP00000078	SSII-3 Q0DDE3	Physiology	4 mutations	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Alk / Starch Synthase II	Oryza sativa rice - (species)	Published - Accepted by Curator
Allantoin permease DAL4	Nitrogen use (growth rate on allantoin)	Coding, Indel N	Saccharomyces cerevisiae baker's yeast - (species) D	Intraspecific	Linkage Mapping	Ibstedt S; Stenberg S; Bagés S ; et al. (2015) Concerted evolution of life stage performances signals recent selection on yeast nitrogen use.	GP00001503	DAL4 Q04895	Physiology	c.1201delA a single nucleotide frameshifting insertion (deletion?) N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	Allantoin permease DAL4	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
Allantoinase DAL1	Nitrogen use (growth rate on allantoin)	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species) D	Intraspecific	Linkage Mapping	Ibstedt S; Stenberg S; Bagés S ; et al. (2015) Concerted evolution of life stage performances signals recent selection on yeast nitrogen use.	GP00001502	DAL1 P32375	Physiology	c.415C>T p.P139S predicted to be strongly detrimental	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	Allantoinase DAL1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
ALMT gene cluster	Metal tolerance	Gene Amplification, Indel	Secale cereale rye - (species)	Domesticated	Linkage Mapping	Collins NC; Shirley NJ; Saeed M ; et al. (2008) An ALMT1 gene cluster controlling aluminum tolerance at the Alt4 locus of rye (Secale cereale L).	GP00000079	ALMT1 Q76LB1	Physiology	Copy number Variant	Secale cereale rye - (species)	Secale cereale rye - (species)	ALMT gene cluster	Secale cereale rye - (species)	Published - Accepted by Curator
ALMT1	Metal tolerance	Cis-regulatory, Unknown	Triticum aestivum bread wheat - (species)	Domesticated	Linkage Mapping	Raman H; Zhang K; Cakir M ; et al. (2005) Molecular characterization and mapping of ALMT1, the aluminium-tolerance gene of bread wheat (Tritic[...] 2 Additional References Cai S; Bai GH; Zhang D (2008) Quantitative trait loci for aluminum resistance in Chinese wheat landrace FSW. Ryan PR; Raman H; Gupta S (2010) The multiple origins of aluminium resistance in hexaploid wheat include Aegilops tauschii and more r[...]	GP00000080	ALMT1 Q76LB1	Physiology	multiple regulatory changes	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species)	ALMT1	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
ALS	Xenobiotic resistance (herbicides; ALS inhibitor)	Coding, SNP	Amaranthus tuberculatus (species) D	Intraspecific	Linkage Mapping	Patzoldt William L; Tranel Patrick J (2007 ) Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus)	GP00001893	ALS P17597	Physiology	W574L	Amaranthus tuberculatus (species)	Amaranthus tuberculatus (species) D	ALS	Amaranthus tuberculatus (species)	Published - Accepted by Curator
ALS	Xenobiotic resistance (herbicides; ALS inhibitor)	Coding, SNP	Amaranthus tuberculatus (species) D	Intraspecific	Linkage Mapping	Patzoldt William L; Tranel Patrick J (2007 ) Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus)	GP00001894	ALS P17597	Physiology	S653N	Amaranthus tuberculatus (species)	Amaranthus tuberculatus (species) D	ALS	Amaranthus tuberculatus (species)	Published - Accepted by Curator
ALS	Xenobiotic resistance (herbicides; ALS inhibitor)	Coding, SNP	Amaranthus tuberculatus (species) D	Intraspecific	Linkage Mapping	Patzoldt William L; Tranel Patrick J (2007 ) Multiple ALS mutations confer herbicide resistance in waterhemp (Amaranthus tuberculatus)	GP00001895	ALS P17597	Physiology	S653T	Amaranthus tuberculatus (species)	Amaranthus tuberculatus (species) D	ALS	Amaranthus tuberculatus (species)	Published - Accepted by Curator
Amhr2	Sex determination (female vs male)	Coding, SNP	Takifugu rubripes torafugu - (species) Takifugu poecilonotus finepatterned puffer - (species) Takifugu pardalis panther puffer - (species)	Intraspecific	Linkage Mapping	Kamiya T; Kai W; Tasumi S ; et al. (2012) A trans-species missense SNP in Amhr2 is associated with sex determination in the tiger pufferfish, [...]	GP00002147	AMHR2 Q16671	Physiology	His/Asp384 heterozygous males have reduced Amrh2 activity due to decreased activity of the kinase signaling domain	Takifugu rubripes torafugu - (species) Takifugu poecilonotus finepatterned puffer - (species) Takifugu pardalis panther puffer - (species)	Takifugu rubripes torafugu - (species) Takifugu poecilonotus finepatterned puffer - (species) Takifugu pardalis panther puffer - (species)	Amhr2	Takifugu rubripes torafugu - (species) Takifugu poecilonotus finepatterned puffer - (species) Takifugu pardalis panther puffer - (species)	Published - Accepted by Curator
AMN1	Cell separation	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Yvert G; Brem RB; Whittle J ; et al. (2003) Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors.	GP00000082	AMN1 P38285	Physiology	D368V	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	AMN1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
AMPD1 (=CG32626)	Drug resistance	Unknown, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Kislukhin G; King EG; Walters KN ; et al. (2013) The genetic architecture of methotrexate toxicity is similar in Drosophila melanogaster and humans.	GP00000083	AMPD1 P23109	Physiology	unknown	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	AMPD1 (=CG32626)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
an2-like (Stan2)	Coloration (tuber skin)	Cis-regulatory, Unknown	Solanum tuberosum potato - (species)	Domesticated	Linkage Mapping	Jung CS; Griffiths HM; De Jong DM ; et al. (2009) The potato developer (D) locus encodes an R2R3 MYB transcription factor that regulates expression of[...]	GP00000088	AN2 A4GRU8	Morphology	unknown	Solanum tuberosum potato - (species)	Solanum tuberosum potato - (species)	an2-like (Stan2)	Solanum tuberosum potato - (species)	Published - Accepted by Curator
anthocyanin2 (an2)	Coloration (fruit)	Cis-regulatory, Unknown	Capsicum chinense (species)	Domesticated	Linkage Mapping	Borovsky Y; Oren-Shamir M; Ovadia R ; et al. (2004) The A locus that controls anthocyanin accumulation in pepper encodes a MYB transcription factor homo[...]	GP00000087	AN2 A4GRU8	Morphology	unknown	Capsicum annuum (species)	Capsicum chinense (species)	anthocyanin2 (an2)	Capsicum chinense (species)	Published - Accepted by Curator
AOP2	Glucosinolate content	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Kliebenstein DJ; Lambrix VM; Reichelt M ; et al. (2001) Gene duplication in the diversification of secondary metabolism: tandem 2-oxoglutarate-dependent dio[...] 2 Additional References Chan EK; Rowe HC; Kliebenstein DJ (2010) Understanding the evolution of defense metabolites in Arabidopsis thaliana using genome-wide associa[...] Chan EK; Rowe HC; Corwin JA (2011) Combining genome-wide association mapping and transcriptional networks to identify novel genes contr[...]	GP00000095	AOP2 Q945B5	Physiology	5bp deletion resulting in frameshift N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AOP2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AOP3	Glucosinolate content	Coding, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Kliebenstein DJ; Lambrix VM; Reichelt M ; et al. (2001) Gene duplication in the diversification of secondary metabolism: tandem 2-oxoglutarate-dependent dio[...] 2 Additional References Chan EK; Rowe HC; Kliebenstein DJ (2010) Understanding the evolution of defense metabolites in Arabidopsis thaliana using genome-wide associa[...] Chan EK; Rowe HC; Corwin JA (2011) Combining genome-wide association mapping and transcriptional networks to identify novel genes contr[...]	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 Rottschaefer SM; Riehle MM; Coulibaly B (2011) Exceptional diversity, maintenance of polymorphism, and recent directional selection on the APL1 mal[...]	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 Xiang H; Liu X; Li M (2018) The evolutionary road from wild moth to domestic silkworm. Tomihara K; Andolfatto P; Kiuchi T (2022) Allele-specific knockouts reveal a role for apontic-like in the evolutionary loss of larval melanin [...]	GP00001386	apt O61602	Morphology	233-kb region around apt-like (pS) refined as 33kb interval in apt-like Intron 1 (+p) with uncharacterized haplotype driving apt-like upregulation in derived phenotypes	Bombyx mori domestic silkworm - (species)	Bombyx mori domestic silkworm - (species) D	apontic-like	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
APSR	Sulfate content (shoot)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Loudet O; Saliba-Colombani V; Camilleri C ; et al. (2007) Natural variation for sulfate content in Arabidopsis thaliana is highly controlled by APR2.	GP00000100	APR2 P92981	Physiology	A399E N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	APSR	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Aquaporin (AQY1)	Growth rate (environment-dependent)	2 Mutations: Coding SNP N	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Linkage Mapping	Will JL; Kim HS; Clarke J ; et al. (2010) Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...] 1 Additional References Bonhivers M; Carbrey JM; Gould SJ (1998) Aquaporins in Saccharomyces. Genetic and functional distinctions between laboratory and wild-type st[...]	GP00001872	AQP1 P29972	Physiology	2 mutations	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	Aquaporin (AQY1)	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
Aquaporin (AQY1)	Growth rate (environment-dependent)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Linkage Mapping	Will JL; Kim HS; Clarke J ; et al. (2010) Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...] 1 Additional References Bonhivers M; Carbrey JM; Gould SJ (1998) Aquaporins in Saccharomyces. Genetic and functional distinctions between laboratory and wild-type st[...]	GP00001874	AQP1 P29972	Physiology	aquaporin yeast 1 gene on chromosome 12 - 955-bp deletion that removes the first 106 bp of AQY1 and its upstream region - GenBank accession numbers for AQY1 and AQY2: GQ848552-74 and GQ870433-54 N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	Aquaporin (AQY1)	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
Aquaporin (AQY2)	Growth rate (environment-dependent)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Linkage Mapping	Will JL; Kim HS; Clarke J ; et al. (2010) Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...] 1 Additional References Carbrey JM; Bonhivers M; Boeke JD (2001) Aquaporins in Saccharomyces: Characterization of a second functional water channel protein.	GP00001875	AQP1 P29972	Physiology	aquaporin yeast 2 gene on chromosome 11 - 11-bp deletion that creates a stop codon in the middle of the AQY2 gene - GenBank accession numbers for AQY1 and AQY2: GQ848552-74 and GQ870433-54 N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	Aquaporin (AQY2)	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
arcp-1	CO2 avoidance Aggregation behavior	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	Beets I; Zhang G; Fenk LA ; et al. (2019) Natural Variation in a Dendritic Scaffold Protein Remodels Experience-Dependent Plasticity by Alteri[...]	GP00002067	CELE_F34D10.6 C6KRH4	Behavior Behavior	8 bp deletion (mfP22) in the open reading frame N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	arcp-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
ARHGAP15	Pathogen resistance (Trypanosoma)	Coding, SNP	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Noyes H; Brass A; Obara I ; et al. (2011) Genetic and expression analysis of cattle identifies candidate genes in pathways responding to Trypa[...]	GP00000103	Arhgap15 Q811M1	Physiology	H282P	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	ARHGAP15	Bos taurus cattle - (species)	Published - Accepted by Curator
aristaless	Coloration (wing, Mullerian mimicry)	Cis-regulatory, Unknown	Heliconius cydno (species) D	Intraspecific	Linkage Mapping	Westerman EL; VanKuren NW; Massardo D ; et al. (2018) Aristaless Controls Butterfly Wing Color Variation Used in Mimicry and Mate Choice.	GP00002059	al Q06453	Morphology	gain of expression - exact mutation unknown	Heliconius cydno (species)	Heliconius cydno (species) D	aristaless	Heliconius cydno (species)	Published - Accepted by Curator
ASP1	Acetic acid production	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Marullo P; Aigle M; Bely M ; et al. (2007) Single QTL mapping and nucleotide-level resolution of a physiologic trait in wine Saccharomyces cere[...]	GP00000104	APS1 P35181	Physiology	Asp142His	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	ASP1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
AT5G41740/AT5G41750	Hybrid incompatibility (auto-immune necrosis)	Unknown, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Bomblies K; Lempe J; Epple P ; et al. (2007) Autoimmune response as a mechanism for a Dobzhansky-Muller-type incompatibility syndrome in plants.	GP00000105	MUF8.2 F4JYI4	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AT5G41740/AT5G41750	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Gene Loss, Complex Change N	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000106	GA20OX1 Q39110	Morphology	Whole gene deletion N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000107	GA20OX1 Q39110	Morphology	-2bp at +297 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000108	GA20OX1 Q39110	Morphology	-1bp "G" at +324 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000109	GA20OX1 Q39110	Morphology	-5bp "G" at +545 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000110	GA20OX1 Q39110	Morphology	-10bp "G" at +784 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000111	GA20OX1 Q39110	Morphology	-29bp at +426 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000112	GA20OX1 Q39110	Morphology	-444bp at +985 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Insertion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000113	GA20OX1 Q39110	Morphology	+1bp "G" at +256 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Insertion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000114	GA20OX1 Q39110	Morphology	+7bp "G" at +961 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Insertion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000115	GA20OX1 Q39110	Morphology	+1bp at +1270 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Insertion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000116	GA20OX1 Q39110	Morphology	Transposon insertion at +1355 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000117	GA20OX1 Q39110	Morphology	W46* N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...] 1 Additional References Xu YL; Li L; Wu K (1995) The GA5 locus of Arabidopsis thaliana encodes a multifunctional gibberellin 20-oxidase: molecular cl[...]	GP00000118	GA20OX1 Q39110	Morphology	W271* -G816A according to Fig.3 of Xu et al. 1995 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000119	GA20OX1 Q39110	Morphology	E312* N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000120	GA20OX1 Q39110	Morphology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism) Plant size (dwarfism)	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000121	GA20OX1 Q39110	Morphology Morphology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000122	GA20OX1 Q39110	Morphology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00000123	GA20OX1 Q39110	Morphology	Splice Site mutation G742A	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Luo Y; Dong X; Yu T ; et al. (2015) A Single Nucleotide Deletion in Gibberellin20-oxidase1 Causes Alpine Dwarfism in Arabidopsis.	GP00001243	GA20OX1 Q39110	Morphology	-1bp at position 184 causing premature stop N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtGA20ox1 (=GA5=Sd1)	Plant size (dwarfism)	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013) Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]	GP00001685	GA20OX1 Q39110	Morphology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtGA20ox1 (=GA5=Sd1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtHKT1	Salt tolerance	Cis-regulatory, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Rus A; Baxter I; Muthukumar B ; et al. (2006) Natural variants of AtHKT1 enhance Na+ accumulation in two wild populations of Arabidopsis. 1 Additional References Baxter I; Brazelton JN; Yu D (2010) A coastal cline in sodium accumulation in Arabidopsis thaliana is driven by natural variation of the[...]	GP00000124	HKT1 Q84TI7	Physiology	725bp deletion of part of upstream repeat region	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtHKT1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtHKT1	Salt tolerance	Cis-regulatory, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Rus A; Baxter I; Muthukumar B ; et al. (2006) Natural variants of AtHKT1 enhance Na+ accumulation in two wild populations of Arabidopsis. 1 Additional References Baxter I; Brazelton JN; Yu D (2010) A coastal cline in sodium accumulation in Arabidopsis thaliana is driven by natural variation of the[...]	GP00000125	HKT1 Q84TI7	Physiology	687bp deletion of part of upstream repeat region	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	AtHKT1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
AtMYC1	Trichome density (leaf)	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Symonds VV; Hatlestad G; Lloyd AM (2011) Natural allelic variation defines a role for ATMYC1: trichome cell fate determination. 1 Additional References Symonds VV; Godoy AV; Alconada T (2005) Mapping quantitative trait loci in multiple populations of Arabidopsis thaliana identifies natural a[...]	GP00001268	BHLH12 Q8W2F1	Morphology	P189A	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	AtMYC1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
ATR13	Pathogenicity	Coding, SNP	Hyaloperonospora parasitica (species)	Intraspecific	Linkage Mapping	Allen RL; Bittner-Eddy PD; Grenville-Briggs LJ ; et al. (2004) Host-parasite coevolutionary conflict between Arabidopsis and downy mildew. 1 Additional References Allen RL; Meitz JC; Baumber RE (2008) Natural variation reveals key amino acids in a downy mildew effector that alters recognition specifi[...]	GP00000128	Atr13 Q5G7K8	Physiology	Multiple coding changes - the avirulence allele ATR13‐Maks9 and the virulence allele ATR13‐Emoy2 only encode differences in the C‐terminal domain (in 11 amino acids) - domain swaps show that one or more of the amino acids in Region A are required for recognition and one or more in Region B are required to elicit a full recognition phenotype. - exact causing mutations unknown	Hyaloperonospora parasitica (species)	Hyaloperonospora parasitica (species)	ATR13	Hyaloperonospora parasitica (species)	Published - Accepted by Curator
B2	Coloration (bulb)	Cis-regulatory, Insertion N	Allium cepa onion - (species) D	Domesticated	Linkage Mapping	Jo C; Kim S (2019) Transposition of a non-autonomous DNA transposon in the gene coding for a bHLH transcription factor [...]	GP00002058		Morphology	577-bp insertion of a transposable element named AcWHITE in the 5′ upstream region of the white allele of B2. A 8-bp target site duplication (GTTATA AC) and a 7-bp terminal inverted repeat (CAAGGTT) were identified at both ends of this insertion - no SNP detected in the coding region N	Allium cepa onion - (species)	Allium cepa onion - (species) D	B2	Allium cepa onion - (species)	Published - Accepted by Curator
B4GALNT2	Fertility (increased ovulation rate)	Cis-regulatory, Unknown	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Drouilhet L; Mansanet C; Sarry J ; et al. (2013) The highly prolific phenotype of Lacaune sheep is associated with an ectopic expression of the B4GAL[...]	GP00001979	B4galnt2 Q09199	Physiology	candidate region to 197kb ; putative mutation (g.36938224T>A) in intron 7or (g.37034573A>G) 96 kb away in an intergenic region	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	B4GALNT2	Ovis aries sheep - (species)	Published - Accepted by Curator
bab	Coloration (abdomen ; sexual trait ; plasticity)	Cis-regulatory, Deletion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	De Castro S; Peronnet F; Gilles JF ; et al. (2018) bric à brac (bab), a central player in the gene regulatory network that mediates thermal plasticity [...]	GP00002423	bab1 Q9W0K7	Morphology	a 56-bp deletion that removes two binding sites for Abdominal B (Abd-B), a direct activator of bab, is present in a cis-regulatiry region of bab1 (within the first intron of bab1) in the Dark line.	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	bab	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
bab	Coloration (wing; male ; irridescence)	Cis-regulatory, Unknown		Interspecific	Linkage Mapping	Ficarrotta V; Hanly JJ; Loh LS ; et al. (2022) A genetic switch for male UV iridescence in an incipient species pair of sulphur butterflies.	GP00002425	bab1 Q9W0K7	Morphology	no fixed coding variation at the bab locus between the sister species. Lower expression of bab in the irridescent scale species. CRISPR bab mutants show that bab is a negative regulator of irridescent scales.	Colias philodice clouded sulphur butterfly - (species)		bab		Published - Accepted by Curator
bab1	Coloration (abdomen)	3 Mutations: Cis-regulatory Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Kopp A; Graze RM; Xu S ; et al. (2003) Quantitative trait loci responsible for variation in sexually dimorphic traits in Drosophila melanog[...] 1 Additional References Bickel RD; Kopp A; Nuzhdin SV (2011) Composite effects of polymorphisms near multiple regulatory elements create a major-effect QTL.	GP00000130	bab1 Q9W0K7	Morphology	3 mutations	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	bab1	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
bab2	Fertility (ovariole number)	Unknown, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Green DA; Extavour CG (2012) Convergent evolution of a reproductive trait through distinct developmental mechanisms in Drosophila[...] 1 Additional References Bergland AO; Genissel A; Nuzhdin SV (2008) Quantitative trait loci affecting phenotypic plasticity and the allometric relationship of ovariole [...]	GP00000132	bab2 Q9W0K4	Physiology	unknown ; loss of function reduces ovariole number	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	bab2	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
BADH2	Fragrance	Coding, SNP	Glycine max soybean - (species)	Domesticated	Linkage Mapping	Juwattanasomran R; Somta P; Chankaew S ; et al. (2011) A SNP in GmBADH2 gene associates with fragrance in vegetable soybean variety "Kaori" and SNAP marker[...]	GP00000133	BADH2 Q84LK3	Physiology	1 amino-acid substitution in conserved enzymatic domain	Glycine max soybean - (species)	Glycine max soybean - (species)	BADH2	Glycine max soybean - (species)	Published - Accepted by Curator
BADH2	Fragrance	Coding, Deletion N	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Bradbury LM; Fitzgerald TL; Henry RJ ; et al. (2005) The gene for fragrance in rice. 1 Additional References Kovach MJ; Calingacion MN; Fitzgerald MA (2009) The origin and evolution of fragrance in rice (Oryza sativa L.).	GP00000134	BADH2 Q84LK3	Physiology	8bp deletion resulting in premature stop codon N	Oryza sativa rice - (species)	Oryza sativa rice - (species)	BADH2	Oryza sativa rice - (species)	Published - Accepted by Curator
Barren inflorescence2 (BIF2)	Plant architecture Inflorescence architecture	Unknown, Unknown	Zea mays (species)	Domesticated	Linkage Mapping	Pressoir G; Brown PJ; Zhu W ; et al. (2009) Natural variation in maize architecture is mediated by allelic differences at the PINOID co-ortholog[...] 1 Additional References Buckler ES; Holland JB; Bradbury PJ (2009) The genetic architecture of maize flowering time.	GP00000135	bif2 A6MW92	Morphology Morphology	unknown	Zea mays (species)	Zea mays (species)	Barren inflorescence2 (BIF2)	Zea mays (species)	Published - Accepted by Curator
BCMA	Glucosinolate content Herbivore resistance	3 Mutations:	Boechera stricta (species)	Intraspecific	Linkage Mapping	Prasad KV; Song BH; Olson-Manning C ; et al. (2012) A gain-of-function polymorphism controlling complex traits and fitness in nature.	GP00000136	J9QWI9	Physiology Physiology	3 mutations	Boechera stricta (species)	Boechera stricta (species)	BCMA	Boechera stricta (species)	Published - Accepted by Curator
BCMO1	Carotenoid content	2 Mutations: Cis-regulatory SNP	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Le Bihan-Duval E; Nadaf J; Berri C ; et al. (2011) Detection of a Cis [corrected] eQTL controlling BCMO1 gene expression leads to the identification of[...]	GP00000137	BCO1 Q9HAY6	Morphology; Physiology	2 mutations	Gallus gallus chicken - (species)	Gallus gallus chicken - (species)	BCMO1	Gallus gallus chicken - (species)	Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2	Carotenoid content (yellow serum)	Coding, SNP N	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Berry SD; Davis SR; Beattie EM ; et al. (2009) Mutation in bovine beta-carotene oxygenase 2 affects milk color. 1 Additional References Tian R; Pitchford WS; Morris CA (2010) Genetic variation in the beta, beta-carotene-9', 10'-dioxygenase gene and association with fat colou[...]	GP00000138	BCO2 Q9BYV7	Physiology	c.306G>A ; p.W102* N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	BCO2 = beta-carotene oxygenase 2	Bos taurus cattle - (species)	Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2	Carotenoid content (skin ; shanks)	Cis-regulatory, Unknown	Gallus sonneratii gray junglefowl - (species) D Gallus gallus chicken - (species) D	Interspecific	Linkage Mapping	Eriksson J; Larson G; Gunnarsson U ; et al. (2008) Identification of the yellow skin gene reveals a hybrid origin of the domestic chicken. 1 Additional References Fallahshahroudi A; Sorato E; Altimiras J (2019) The Domestic BCO2 Allele Buffers Low-Carotenoid Diets in Chickens: Possible Fitness Increase Through[...]	GP00000139	BCO2 Q9BYV7	Morphology; Physiology	Not identified	Gallus gallus chicken - (species)	Gallus sonneratii gray junglefowl - (species) D Gallus gallus chicken - (species) D	BCO2 = beta-carotene oxygenase 2	Gallus sonneratii gray junglefowl - (species) Gallus gallus chicken - (species)	Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2	Carotenoid content (sexual dichromatism, male-specific)	Unknown, Unknown	Serinus canaria common canary - (species)	Intergeneric or Higher	Linkage Mapping	Gazda MA; Araújo PM; Lopes RJ ; et al. (2020) A genetic mechanism for sexual dichromatism in birds.	GP00002139	BCO2 Q9BYV7	Morphology	Gene expression study suggests a cis-regulatory difference ; and coding mutations are unlikely to be causal	Spinus cucullatus red siskin - (species)	Serinus canaria common canary - (species)	BCO2 = beta-carotene oxygenase 2	Serinus canaria common canary - (species)	Published - Accepted by Curator
benzoic acid/salicylic acid carboxyl methyltransferase (BSMT)	Fragrance	Cis-regulatory, Unknown	Petunia axillaris (species) D	Interspecific	Linkage Mapping	Amrad A; Moser M; Mandel T ; et al. (2016) Gain and Loss of Floral Scent Production through Changes in Structural Genes during Pollinator-Media[...]	GP00001766	BSMT1 Q6XMI3	Physiology	Allele-specific expression in hybrids - de novo expression in P. axillaris	Petunia integrifolia subsp. inflata (subspecies)	Petunia axillaris (species) D	benzoic acid/salicylic acid carboxyl methyltransferase (BSMT)	Petunia axillaris (species)	Published - Accepted by Curator
benzoyl-CoA:benzylalcohol/2-phenylethanol benzoyltransferase (BPBT)	Fragrance	Cis-regulatory, Unknown	Petunia axillaris (species) D	Interspecific	Linkage Mapping	Amrad A; Moser M; Mandel T ; et al. (2016) Gain and Loss of Floral Scent Production through Changes in Structural Genes during Pollinator-Media[...]	GP00001765	BPBT A0A172W606	Physiology	Allele-specific expression in hybrids - de novo expression in P. axillaris	Petunia integrifolia subsp. inflata (subspecies)	Petunia axillaris (species) D	benzoyl-CoA:benzylalcohol/2-phenylethanol benzoyltransferase (BPBT)	Petunia axillaris (species)	Published - Accepted by Curator
beta-casein	Milk protein content (casein)	Coding, SNP	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Gallinat JL; Qanbari S; Drögemüller C ; et al. (2013) DNA-based identification of novel bovine casein gene variants.	GP00002025	CSN2 P02666	Physiology	g.87181619A>C c.245A>C p.H82P CAT>CCT	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	beta-casein	Bos taurus cattle - (species)	Published - Accepted by Curator
beta-defensin 103 (CBD103)	Coloration (coat)	Coding, Deletion	Canis lupus familiaris dog - (subspecies) D Canis latrans coyote - (species) D Canis lupus gray wolf - (species) D	Domesticated	Linkage Mapping	Candille SI; Kaelin CB; Cattanach BM ; et al. (2007) A -defensin mutation causes black coat color in domestic dogs. 2 Additional References Anderson TM; vonHoldt BM; Candille SI (2009) Molecular and evolutionary history of melanism in North American gray wolves. Schweizer RM; Durvasula A; Smith J (2018) Natural Selection and Origin of a Melanistic Allele in North American Gray Wolves.	GP00000141	CBD103 Q30KV0	Morphology; Physiology	3bp in-frame deletion in exon 2 = deletion of Gly23	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D Canis latrans coyote - (species) D Canis lupus gray wolf - (species) D	beta-defensin 103 (CBD103)	Canis lupus familiaris dog - (subspecies) Canis latrans coyote - (species) Canis lupus gray wolf - (species)	Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)	Resistance to UV irradiation (flavonol glycosylation)	Coding, SNP N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Ishihara H; Tohge T; Viehöver P ; et al. (2016) Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...] 1 Additional References Keurentjes JJ; Fu J; de Vos CH (2006) The genetics of plant metabolism.	GP00001263	BGLU6 Q682B4	Physiology	T-> A of a splice site at position 168 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Beta-glucosidase6 (BGLU6)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)	Resistance to UV irradiation (flavonol glycosylation)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Ishihara H; Tohge T; Viehöver P ; et al. (2016) Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...] 1 Additional References Keurentjes JJ; Fu J; de Vos CH (2006) The genetics of plant metabolism.	GP00001264	BGLU6 Q682B4	Physiology	1-bp deletion of a splice site at position 395 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Beta-glucosidase6 (BGLU6)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)	Resistance to UV irradiation (flavonol glycosylation)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Ishihara H; Tohge T; Viehöver P ; et al. (2016) Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...] 1 Additional References Keurentjes JJ; Fu J; de Vos CH (2006) The genetics of plant metabolism.	GP00001265	BGLU6 Q682B4	Physiology	GAG to stop codon TAG at position 913 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Beta-glucosidase6 (BGLU6)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)	Resistance to UV irradiation (flavonol glycosylation)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Ishihara H; Tohge T; Viehöver P ; et al. (2016) Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...] 1 Additional References Keurentjes JJ; Fu J; de Vos CH (2006) The genetics of plant metabolism.	GP00001266	BGLU6 Q682B4	Physiology	A deletion of one nucleotide in the seventh exon (BGLU6 CDS position 678) results in a premature stop codon in the accessions Bor-4, Se-0, Uod-1, and Zdr-1. premature stop codon N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Beta-glucosidase6 (BGLU6)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Beta-glucosidase6 (BGLU6)	Resistance to UV irradiation (flavonol glycosylation)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Ishihara H; Tohge T; Viehöver P ; et al. (2016) Natural variation in flavonol accumulation in Arabidopsis is determined by the flavonol glucosyltran[...] 1 Additional References Keurentjes JJ; Fu J; de Vos CH (2006) The genetics of plant metabolism.	GP00001267	BGLU6 Q682B4	Physiology	GAG to stop codon TAG at position 1138 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Beta-glucosidase6 (BGLU6)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Bh4	Coloration (seed hull)	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Zhu BF; Si L; Wang Z ; et al. (2011) Genetic control of a transition from black to straw-white seed hull in rice domestication. 1 Additional References Huang X; Kurata N; Wei X (2012) A map of rice genome variation reveals the origin of cultivated rice.	GP00000143	Bh4 A0A0H3ZGK8	Morphology	22-bp deletion N	Oryza rufipogon (species)	Oryza sativa rice - (species) D	Bh4	Oryza sativa rice - (species)	Published - Accepted by Curator
Bm-iAANAT	Coloration (larva)	Coding, Deletion N	Bombyx mori domestic silkworm - (species) D	Domesticated	Linkage Mapping	Zhan S; Guo Q; Li M ; et al. (2010) Disruption of an N-acetyltransferase gene in the silkworm reveals a novel role in pigmentation. 1 Additional References Dai FY; Qiao L; Tong XL (2010) Mutations of an arylalkylamine-N-acetyltransferase, Bm-iAANAT, are responsible for silkworm melanism[...]	GP00000145	Aanat D6MKR2	Morphology	126-bp deletion overlapping with end of exon 4 and resulting in misplicing. Linkage analysis and genomic studies have shown that Bombyx arylalkamine-N-acetyl transferase, the homologous gene (Dat) that converts dopamine into N-acetyl dopamine, encodes a precursor of N-acetyl dopamine, sclerotin in Drosophila and it is the gene responsible for mln. N	Bombyx mori domestic silkworm - (species)	Bombyx mori domestic silkworm - (species) D	Bm-iAANAT	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
BMP receptor IB (BMPRIB)	Fertility (increased ovulation rate)	Coding, SNP	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Mulsant P; Lecerf F; Fabre S ; et al. (2001) Mutation in bone morphogenetic protein receptor-IB is associated with increased ovulation rate in Bo[...]	GP00000146	BMPR-IB Q9BDI4	Physiology	g.29382188A>G c.914A>G p.Q305R	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	BMP receptor IB (BMPRIB)	Ovis aries sheep - (species)	Published - Accepted by Curator
BMP15	Fertility (increased ovulation rate)	Coding, SNP N	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Galloway SM; McNatty KP; Cambridge LM ; et al. (2000) Mutations in an oocyte-derived growth factor gene (BMP15) cause increased ovulation rate and inferti[...]	GP00000147	Bmp15 Q9Z0L4	Physiology	c.67C>T p.Q23* N	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	BMP15	Ovis aries sheep - (species)	Published - Accepted by Curator
BMP15	Fertility (increased ovulation rate)	Coding, SNP	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Galloway SM; McNatty KP; Cambridge LM ; et al. (2000) Mutations in an oocyte-derived growth factor gene (BMP15) cause increased ovulation rate and inferti[...]	GP00000148	Bmp15 Q9Z0L4	Physiology	A distinct single T>A transition occurs in FecXI carriers at nucleotide position 92 of the mature peptide . . . The mutation substitutes valine (V) with aspartic acid (D) at residue 31 (residue 299 of unprocessed protein) . . . The FecXI mutation is a non-conservative change in a highly conserved region of the protein	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	BMP15	Ovis aries sheep - (species)	Published - Accepted by Curator
BMP15	Fertility (increased ovulation rate)	Coding, SNP	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Galloway SM; McNatty KP; Cambridge LM ; et al. (2000) Mutations in an oocyte-derived growth factor gene (BMP15) cause increased ovulation rate and inferti[...]	GP00002156	Bmp15 Q9Z0L4	Physiology	c.G>A p.C321Y missense nonconservative substitution ; in vitro studies showed that the C53Y mutation was responsible for the impairment of the maturation process of the BMP15 protein resulting in a defective secretion of both the precursor and mature peptide	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	BMP15	Ovis aries sheep - (species)	Published - Accepted by Curator
BMP2	Fertility (egg production) Bird head morphology (male comb)	Cis-regulatory, Unknown	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Johnsson M; Gustafson I; Rubin CJ ; et al. (2012) A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during d[...] 1 Additional References Johnsson M; Rubin CJ; Höglund A (2014) The role of pleiotropy and linkage in genes affecting a sexual ornament and bone allocation in the c[...]	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 Albertson RC; Streelman JT; Kocher TD (2005) Integration and evolution of the cichlid mandible: the molecular basis of alternate feeding strategi[...] Albertson RC; Kocher TD (2006) Genetic and developmental basis of cichlid trophic diversity.	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 Ellis NA; Glazer AM; Donde NN (2015) Distinct developmental genetic mechanisms underlie convergently evolved tooth gain in sticklebacks. Erickson PA; Cleves PA; Ellis NA (2015) A 190 base pair, TGF-β responsive tooth and fin enhancer is required for stickleback Bmp6 expression[...]	GP00000154	Bmp6 P20722	Morphology	Candidate enhancer of 190bp recapitulating tooth and fin expression of BMP6	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	BMP6	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
BOLTING TIME CONTROL 1 (BvBTC1)	Flowering time	Cis-regulatory, Unknown	Beta vulgaris (species)	Domesticated	Linkage Mapping	Pin PA; Zhang W; Vogt SH ; et al. (2012) The role of a pseudo-response regulator gene in life cycle adaptation and domestication of beet.	GP00000155	BTC1 I3NN18	Physiology	unknown	Beta vulgaris (species)	Beta vulgaris (species)	BOLTING TIME CONTROL 1 (BvBTC1)	Beta vulgaris (species)	Published - Accepted by Curator
Brassinosteroid-deficient dwarf1 (brd1)	Plant size (height)	Unknown, Unknown	Zea mays (species)	Intraspecific	Linkage Mapping	Peiffer JA; Romay MC; Gore MA ; et al. (2014) The genetic architecture of maize height.	GP00001628	ZEAMMB73_Zm00001d033180 A0A1D6KWT1	Morphology	On chromosome 1 two C>T transitions reduce plant height in 18RIL families	Zea mays (species)	Zea mays (species)	Brassinosteroid-deficient dwarf1 (brd1)	Zea mays (species)	Published - Accepted by Curator
Brevis radix (BRX)	Root size (shorter)	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Mouchel CF; Briggs GC; Hardtke CS (2004) Natural genetic variation in Arabidopsis identifies BREVIS RADIX, a novel regulator of cell prolifer[...]	GP00000157	BRX Q17TI5	Morphology	premature stop codon in exon 4; TGG>TGA; truncated protein missing approximately two-thirds of the C terminus N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Brevis radix (BRX)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Brevis radix (BRX)	Root growth	Coding, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Beuchat J; Li S; Ragni L ; et al. (2010) A hyperactive quantitative trait locus allele of Arabidopsis BRX contributes to natural variation in[...]	GP00001262	BRX Q17TI5	Morphology	21bp deletion at position in spacer 3 (position not given)	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Brevis radix (BRX)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
brittle endosperm2 (Bt2) = endosperm ADP-glucose pyrophosphorylase small subunit	Sweet and brittle seed	Unknown, Unknown	Zea mays (species)	Domesticated	Linkage Mapping	Preiss J; Danner S; Summers PS ; et al. (1990) Molecular Characterization of the Brittle-2 Gene Effect on Maize Endosperm ADPglucose Pyrophosphoryl[...]	GP00000158	bt2 Q84J79	Physiology	Not identified	Zea mays (species)	Zea mays (species)	brittle endosperm2 (Bt2) = endosperm ADP-glucose pyrophosphorylase small subunit	Zea mays (species)	Published - Accepted by Curator
Brix9-2-5/LIN5 invertase	Fruit sugar content	Unknown, Unknown	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Fridman E; Carrari F; Liu YS ; et al. (2004) Zooming in on a quantitative trait for tomato yield using interspecific introgressions.	GP00000159	LIN5 P93199	Physiology	Not identified	Solanum pennellii (species)	Solanum lycopersicum tomato - (species) D	Brix9-2-5/LIN5 invertase	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
BTN1A1	Pathogen resistance (virus)	Coding, SNP N	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Elleder D; Stepanets V; Melder DC ; et al. (2005) The receptor for the subgroup C avian sarcoma and leukosis viruses, Tvc, is related to mammalian but[...]	GP00002160	BTN1A1 Q13410	Physiology	g.808011C>A c.165C>A p.C55* N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species)	BTN1A1	Gallus gallus chicken - (species)	Published - Accepted by Curator
btr1	Seed shattering (grain dispersal ; retention)	Coding, Deletion N	Hordeum vulgare subsp. vulgare domesticated barley - (subspecies) D	Domesticated	Linkage Mapping	Pourkheirandish M; Hensel G; Kilian B ; et al. (2015) Evolution of the Grain Dispersal System in Barley.	GP00001445	BTR1 A0A0K1RJT0	Physiology	1bp deletion at position 202 inducing a frameshift N	Hordeum vulgare (species)	Hordeum vulgare subsp. vulgare domesticated barley - (subspecies) D	btr1	Hordeum vulgare subsp. vulgare domesticated barley - (subspecies)	Published - Accepted by Curator
btr2	Seed shattering (grain dispersal ; retention)	Coding, Deletion N	Hordeum vulgare subsp. vulgare domesticated barley - (subspecies) D	Domesticated	Linkage Mapping	Pourkheirandish M; Hensel G; Kilian B ; et al. (2015) Evolution of the Grain Dispersal System in Barley.	GP00001446	BTR2 A0A0K1RKV9	Physiology	11bp deletion at position 254-264 creating a frameshift N	Hordeum vulgare (species)	Hordeum vulgare subsp. vulgare domesticated barley - (subspecies) D	btr2	Hordeum vulgare subsp. vulgare domesticated barley - (subspecies)	Published - Accepted by Curator
BUL2	Telomere length Aging	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Kwan EX; Foss E; Kruglyak L ; et al. (2011) Natural polymorphism in BUL2 links cellular amino acid availability with chronological aging and tel[...]	GP00000166	BUL2 Q03758	Physiology Physiology	Leu883Phe	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	BUL2	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
BvCPSF73-Ia	Bolting time	Coding, Deletion N	Beta vulgaris (species) D	Intraspecific	Linkage Mapping	Tränkner C; Lemnian IM; Emrani N ; et al. (2016) A Detailed Analysis of the BR Locus Suggests a New Mechanism for Bolting after Winter in Sugar Beet [...]	GP00001411	CPSF73-I Q9C952	Physiology	2bp deletion causing a frameshift resulting in a two third truncated protein N	Beta vulgaris (species)	Beta vulgaris (species) D	BvCPSF73-Ia	Beta vulgaris (species)	Published - Accepted by Curator
c1	Coloration (seed)	Cis-regulatory, Insertion	Zea mays (species) D	Domesticated	Linkage Mapping	Hattori T; Vasil V; Rosenkrans L ; et al. (1992) The Viviparous-1 gene and abscisic acid activate the C1 regulatory gene for anthocyanin biosynthesis[...] 1 Additional References Hanson MA; Gaut BS; Stec AO (1996) Evolution of anthocyanin biosynthesis in maize kernels: the role of regulatory and enzymatic loci.	GP00000167	C1 P10290	Morphology	5bp insertion in the proximal promoter that creates a new binding site for VP1; a transcription factor that regulates kernel maturation; so that the pigment pathway is turned on while the kernel matures; giving blue kernels	Zea mays (species)	Zea mays (species) D	c1	Zea mays (species)	Published - Accepted by Curator
cadherin	Xenobiotic resistance (insecticide; Bt Cry1Ac)	Coding, Unknown N	Helicoverpa armigera cotton bollworm - (species) D	Intraspecific	Linkage Mapping	Xu X; Yu L; Wu Y (2005) Disruption of a cadherin gene associated with resistance to Cry1Ac {delta}-endotoxin of Bacillus thu[...]	GP00000160	BtR Q19KJ3	Physiology	premature stop codon in exon 4; truncated protein missing approximately two-thirds of the C terminus N	Helicoverpa armigera cotton bollworm - (species)	Helicoverpa armigera cotton bollworm - (species) D	cadherin	Helicoverpa armigera cotton bollworm - (species)	Published - Accepted by Curator
cadherin	Xenobiotic resistance (insecticide)	Coding, Insertion N	Heliothis virescens tobacco budworm - (species) D	Intraspecific	Linkage Mapping	Gahan LJ; Gould F; Heckel DG (2001) Identification of a gene associated with Bt resistance in Heliothis virescens.	GP00000161	BtR Q19KJ3	Physiology	Insertion of retrotransposon N	Heliothis virescens tobacco budworm - (species)	Heliothis virescens tobacco budworm - (species) D	cadherin	Heliothis virescens tobacco budworm - (species)	Published - Accepted by Curator
cadherin	Xenobiotic resistance (insecticide)	Coding, Deletion N	Pectinophora gossypiella pink bollworm - (species) D	Intraspecific	Linkage Mapping	Morin S; Biggs RW; Sisterson MS ; et al. (2003) Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm. 1 Additional References Zhang H; Tian W; Zhao J (2012) Diverse genetic basis of field-evolved resistance to Bt cotton in cotton bollworm from China.	GP00000162	BtR Q19KJ3	Physiology	126bp in-frame deletion N	Pectinophora gossypiella pink bollworm - (species)	Pectinophora gossypiella pink bollworm - (species) D	cadherin	Pectinophora gossypiella pink bollworm - (species)	Published - Accepted by Curator
cadherin	Xenobiotic resistance (insecticide)	Coding, Deletion N	Pectinophora gossypiella pink bollworm - (species) D	Intraspecific	Linkage Mapping	Morin S; Biggs RW; Sisterson MS ; et al. (2003) Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm. 1 Additional References Zhang H; Tian W; Zhao J (2012) Diverse genetic basis of field-evolved resistance to Bt cotton in cotton bollworm from China.	GP00000163	BtR Q19KJ3	Physiology	202bp deletion N	Pectinophora gossypiella pink bollworm - (species)	Pectinophora gossypiella pink bollworm - (species) D	cadherin	Pectinophora gossypiella pink bollworm - (species)	Published - Accepted by Curator
cadherin	Xenobiotic resistance (insecticide)	Coding, Deletion	Pectinophora gossypiella pink bollworm - (species) D	Intraspecific	Linkage Mapping	Morin S; Biggs RW; Sisterson MS ; et al. (2003) Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm. 1 Additional References Zhang H; Tian W; Zhao J (2012) Diverse genetic basis of field-evolved resistance to Bt cotton in cotton bollworm from China.	GP00000164	BtR Q19KJ3	Physiology	24bp in-frame deletion	Pectinophora gossypiella pink bollworm - (species)	Pectinophora gossypiella pink bollworm - (species) D	cadherin	Pectinophora gossypiella pink bollworm - (species)	Published - Accepted by Curator
cadherin	Xenobiotic resistance (insecticide)	Coding, SNP	Pectinophora gossypiella pink bollworm - (species) D	Intraspecific	Linkage Mapping	Zhang H; Tian W; Zhao J ; et al. (2012) Diverse genetic basis of field-evolved resistance to Bt cotton in cotton bollworm from China.	GP00000165	BtR Q19KJ3	Physiology	E1266L R1268E and E1270V - whether each mutation has an effect or only one of them is unknown	Pectinophora gossypiella pink bollworm - (species)	Pectinophora gossypiella pink bollworm - (species) D	cadherin	Pectinophora gossypiella pink bollworm - (species)	Published - Accepted by Curator
Callipyge (CLPG1)	Muscular mass (double-muscling ; paternal effect)	Cis-regulatory, SNP	Ovis aries sheep - (species)	Domesticated	Linkage Mapping	Takeda H; Caiment F; Smit M ; et al. (2006) The callipyge mutation enhances bidirectional long-range DLK1-GTL2 intergenic transcription in cis. 5 Additional References Freking BA; Murphy SK; Wylie AA (2002) Identification of the single base change causing the callipyge muscle hypertrophy phenotype, the onl[...] Murphy SK; Nolan CM; Huang Z (2006) Callipyge mutation affects gene expression in cis: a potential role for chromatin structure. Smit M; Segers K; Carrascosa LG (2003) Mosaicism of Solid Gold supports the causality of a noncoding A-to-G transition in the determinism o[...] Georges M; Charlier C; Cockett N (2003) The callipyge locus: evidence for the trans interaction of reciprocally imprinted genes. Gao YQ; Chen X; Wang P (2015) Regulation of DLK1 by the maternally expressed miR-379/miR-544 cluster may underlie callipyge polar [...]	GP00000168	DIO3 Q6DN07	Morphology; Physiology	1bp change in the regulatory region of the DLK1-GTL2 imprinted gene cluster	Ovis aries sheep - (species)	Ovis aries sheep - (species)	Callipyge (CLPG1)	Ovis aries sheep - (species)	Published - Accepted by Curator
Carotenoid-binding protein (CBP)	Coloration (silk)	Gene Amplification, Complex Change	Bombyx mori domestic silkworm - (species) D	Domesticated	Linkage Mapping	Sakudoh T; Nakashima T; Kuroki Y ; et al. (2011) Diversity in copy number and structure of a silkworm morphogenetic gene as a result of domestication[...] 1 Additional References Xiang H; Liu X; Li M (2018) The evolutionary road from wild moth to domestic silkworm.	GP00000169	Q1HE01	Morphology	Copy Number Variation (up to 20 copies in B. mori ; only one in the wild form; B. mandarina)	Bombyx mandarina wild silkworm - (species)	Bombyx mori domestic silkworm - (species) D	Carotenoid-binding protein (CBP)	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
CAST	Meat tenderness	Cis-regulatory, Unknown	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Nonneman D; Lindholm-Perry AK; Shackelford SD ; et al. (2011) Predictive markers in calpastatin for tenderness in commercial pig populations.	GP00000170	CAST P20810	Physiology	4 candidate SNPs in putative enhancers with nuclear factor-binding properties	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	CAST	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
Catecholamines up	Bristle number Lifespan Locomotor activity Sleep	Coding, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Carbone MA; Jordan KW; Lyman RF ; et al. (2006) Phenotypic variation and natural selection at catsup, a pleiotropic quantitative trait gene in Droso[...] 1 Additional References Stein MB; Koverola C; Hanna C (1997) Hippocampal volume in women victimized by childhood sexual abuse.	GP00000172	Catsup Q9V3A4	Morphology Physiology Behavior Behavior	unknown; but most large-effect variants appear to be coding	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Catecholamines up	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
CBF gene cluster	Temperature tolerance (cold)	Unknown, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Gery C; Zuther E; Schulz E ; et al. (2011) Natural variation in the freezing tolerance of Arabidopsis thaliana: effects of RNAi-induced CBF dep[...]	GP00000174	B1NSN2	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	CBF gene cluster	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
CBF12	Temperature tolerance (cold)	Coding, Unknown	Triticum monococcum (species)	Domesticated	Linkage Mapping	Knox AK; Li C; Vágújfalvi A ; et al. (2008) Identification of candidate CBF genes for the frost tolerance locus Fr-Am2 in Triticum monococcum.	GP00000175	B1NSN2	Physiology	possibly 5a.a. deletion in DNA binding domain	Triticum monococcum (species)	Triticum monococcum (species)	CBF12	Triticum monococcum (species)	Published - Accepted by Curator
CDKN2A	Coloration (feathers ; sex-linked dilution)	2 Mutations:	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Schwochow Thalmann D; Ring H; Sundström E ; et al. (2017) The evolution of Sex-linked barring alleles in chickens involves both regulatory and coding changes [...] 1 Additional References Hellström AR; Sundström E; Gunnarsson U (2010) Sex-linked barring in chickens is controlled by the CDKN2A /B tumour suppressor locus.	GP00000178	CDKN2A P42771	Morphology	2 mutations	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	CDKN2A	Gallus gallus chicken - (species)	Published - Accepted by Curator
CDKN2A	Coloration (feathers ; sex-linked barring)	2 Mutations:	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Schwochow Thalmann D; Ring H; Sundström E ; et al. (2017) The evolution of Sex-linked barring alleles in chickens involves both regulatory and coding changes [...] 1 Additional References Hellström AR; Sundström E; Gunnarsson U (2010) Sex-linked barring in chickens is controlled by the CDKN2A /B tumour suppressor locus.	GP00002162	CDKN2A P42771	Morphology	2 mutations	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	CDKN2A	Gallus gallus chicken - (species)	Published - Accepted by Curator
CENTRORADIALIS (HvCEN)	Flowering time Seasonal growth	Coding, SNP	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Comadran J; Kilian B; Russell J ; et al. (2012) Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and [...]	GP00000179	CEN Q9ZNV5	Physiology Physiology	P135A	Hordeum vulgare (species)	Hordeum vulgare (species)	CENTRORADIALIS (HvCEN)	Hordeum vulgare (species)	Published - Accepted by Curator
Cf-2.1 and Cf-2.2	Pathogen resistance (leaf mold fungus ; root parasitic nematode)	Gene Loss, Deletion N	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Dixon MS; Jones DA; Keddie JS ; et al. (1996) The tomato Cf-2 disease resistance locus comprises two functional genes encoding leucine-rich repeat[...] 2 Additional References Dixon MS; Hatzixanthis K; Jones DA (1998) The tomato Cf-5 disease resistance gene and six homologs show pronounced allelic variation in leucin[...] Lozano-Torres JL; Wilbers RH; Gawronski P (2012) Dual disease resistance mediated by the immune receptor Cf-2 in tomato requires a common virulence t[...]	GP00000180	Q41398	Physiology	loss of the two genes Cf-2.1 and Cf-2.2 (see Dixon et al. 1998) in cultivated tomato - resistance re-acquired from related species N	Solanum pimpinellifolium (species)	Solanum lycopersicum tomato - (species) D	Cf-2.1 and Cf-2.2	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
Cf-4/9	Pathogen resistance	Gene Loss, Complex Change	Solanum lycopersicum tomato - (species)	Domesticated	Linkage Mapping	Parniske M; Hammond-Kosack KE; Golstein C ; et al. (1997) Novel disease resistance specificities result from sequence exchange between tandemly repeated genes[...]	GP00000181	Cf-4A Q7DLS4	Physiology	partial loss of two gene coding regions located in tandem; resulting in a chimeric gene	Solanum pimpinellifolium (species)	Solanum lycopersicum tomato - (species)	Cf-4/9	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
Chalk5	Grain chalkiness Amylose content Grain yield	Cis-regulatory, SNP	Oryza sativa rice - (species)	Intraspecific	Linkage Mapping	Li Y; Fan C; Xing Y ; et al. (2014) Chalk5 encodes a vacuolar H(+)-translocating pyrophosphatase influencing grain chalkiness in rice.	GP00001309	Chalk5 A2Y0L3	Morphology Physiology Physiology	Two candidate SNPs at positions -721 and - 485 in promoter region	Oryza sativa rice - (species)	Oryza sativa rice - (species)	Chalk5	Oryza sativa rice - (species)	Published - Accepted by Curator
Chitin synthase 1 (CHS1)	Xenobiotic resistance (insecticide; etoxazole acaricide)	Coding, SNP	Tetranychus urticae two-spotted spider mite - (species)	Intraspecific	Linkage Mapping	Demaeght P; Osborne EJ; Odman-Naresh J ; et al. (2014) High resolution genetic mapping uncovers chitin synthase-1 as the target-site of the structurally di[...] 1 Additional References Van Leeuwen T; Demaeght P; Osborne EJ (2012) Population bulk segregant mapping uncovers resistance mutations and the mode of action of a chitin s[...]	GP00001602	chs1 H9U0G2	Physiology	A>T p.I1017F (I1056 in D. melanogaster) located in the C-terminal transmembrane domain	Tetranychus urticae two-spotted spider mite - (species)	Tetranychus urticae two-spotted spider mite - (species)	Chitin synthase 1 (CHS1)	Tetranychus urticae two-spotted spider mite - (species)	Published - Accepted by Curator
CHKov1	Pathogen resistance Xenobiotic resistance (insecticide)	Coding, Insertion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Magwire MM; Bayer F; Webster CL ; et al. (2011) Successive increases in the resistance of Drosophila to viral infection through a transposon inserti[...] 1 Additional References Aminetzach YT; Macpherson JM; Petrov DA (2005) Pesticide resistance via transposition-mediated adaptive gene truncation in Drosophila.	GP00000182	CHKov1 Q961V7	Physiology Physiology	Insertion of a Doc TE element resulting in novel; seemingly functional short protein	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	CHKov1	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Cinnamate-CoA ligase 1 (CNL1)	Fragrance	3 Mutations: N	Petunia exserta (species) D	Interspecific	Linkage Mapping	Amrad A; Moser M; Mandel T ; et al. (2016) Gain and Loss of Floral Scent Production through Changes in Structural Genes during Pollinator-Media[...]	GP00001391	CNL A0A172W603	Physiology	3 mutations	Petunia axillaris (species)	Petunia exserta (species) D	Cinnamate-CoA ligase 1 (CNL1)	Petunia exserta (species)	Published - Accepted by Curator
Cinnamate-CoA ligase 1 (CNL1)	Fragrance	Coding, SNP N	Capsella rubella (species) D	Interspecific	Linkage Mapping	Sas C; Müller F; Kappel C ; et al. (2016) Repeated Inactivation of the First Committed Enzyme Underlies the Loss of Benzaldehyde Emission afte[...]	GP00001767	CNL A0A172W603	Physiology	serine-to-arginine exchange at position 453 (T-to-A nucleotide exchange at genomic position 7 539 424) - this mutation is located immediately next to highly conserved amino acids predicted to be involved in adenosine monophosphate and coenzyme A binding; it involves two biochemically very dissimilar amino acids; and the serine at this position is conserved N	Capsella grandiflora (species)	Capsella rubella (species) D	Cinnamate-CoA ligase 1 (CNL1)	Capsella rubella (species)	Published - Accepted by Curator
Cinnamate-CoA ligase 1 (CNL1)	Fragrance	Coding, Deletion N	Capsella rubella (species) D	Interspecific	Linkage Mapping	Sas C; Müller F; Kappel C ; et al. (2016) Repeated Inactivation of the First Committed Enzyme Underlies the Loss of Benzaldehyde Emission afte[...]	GP00001768	CNL A0A172W603	Physiology	a 4 bp deletion resulting in a frameshift 795 bp downstream of the start codon and causing a premature stop codon N	Capsella grandiflora (species)	Capsella rubella (species) D	Cinnamate-CoA ligase 1 (CNL1)	Capsella rubella (species)	Published - Accepted by Curator
CINNAMOYL CO-A REDUCTASE 1	Fiber content	Coding, Unknown N	Brassica napus rape - (species)	Domesticated	Linkage Mapping	Liu L; Stein A; Wittkop B ; et al. (2012) A knockout mutation in the lignin biosynthesis gene CCR1 explains a major QTL for acid detergent lig[...]	GP00000186	CCR1 Q9S9N9	Physiology	Frameshift mutation in exon1 N	Brassica napus rape - (species)	Brassica napus rape - (species)	CINNAMOYL CO-A REDUCTASE 1	Brassica napus rape - (species)	Published - Accepted by Curator
CLV3	Fruit size	Cis-regulatory, Inversion	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Xu C; Liberatore KL; MacAlister CA ; et al. (2015) A cascade of arabinosyltransferases controls shoot meristem size in tomato.	GP00001565	CLV3 Q9XF04	Morphology	A 294 kb inversion with a breakpoint 1 kb upstream of CLV3	Solanum pimpinellifolium (species)	Solanum lycopersicum tomato - (species) D	CLV3	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
cly1	Pollen shedding (Cleistogamy; lodicule size)	Cis-regulatory, SNP	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Nair SK; Wang N; Turuspekov Y ; et al. (2010) Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage[...] 1 Additional References Turuspekov Y; Mano Y; Honda I (2004) Identification and mapping of cleistogamy genes in barley.	GP00001314	AP2 P47927	Morphology	A>G @position 3084; in a miRNA targeting site.	Hordeum vulgare (species)	Hordeum vulgare (species) D	cly1	Hordeum vulgare (species)	Published - Accepted by Curator
cly1	Pollen shedding (Cleistogamy; lodicule size)	Cis-regulatory, SNP	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Nair SK; Wang N; Turuspekov Y ; et al. (2010) Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage[...] 1 Additional References Turuspekov Y; Mano Y; Honda I (2004) Identification and mapping of cleistogamy genes in barley.	GP00001315	AP2 P47927	Morphology	A>C @position 3090; in a miRNA targeting site.	Hordeum vulgare (species)	Hordeum vulgare (species) D	cly1	Hordeum vulgare (species)	Published - Accepted by Curator
cly1	Pollen shedding (Cleistogamy; lodicule size)	Cis-regulatory, Epigenetic Change	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Wang N; Ning S; Wu J ; et al. (2015) An epiallele at cly1 affects the expression of floret closing (cleistogamy) in barley.	GP00001316	AP2 P47927	Morphology	T>C @position -245; creating differential methylation	Hordeum vulgare (species)	Hordeum vulgare (species) D	cly1	Hordeum vulgare (species)	Published - Accepted by Curator
CmACS-7	Flower sex determination (male organs)	Coding, SNP	Cucumis melo muskmelon - (species)	Domesticated	Linkage Mapping	Boualem A; Fergany M; Fernandez R ; et al. (2008) A conserved mutation in an ethylene biosynthesis enzyme leads to andromonoecy in melons.	GP00000187	ACS7 Q9STR4	Physiology	A57V	Cucumis melo muskmelon - (species)	Cucumis melo muskmelon - (species)	CmACS-7	Cucumis melo muskmelon - (species)	Published - Accepted by Curator
CmWIP1	Flower sex determination (female vs. hermaphrodite)	Cis-regulatory, Insertion	Cucumis melo muskmelon - (species) D	Domesticated	Linkage Mapping	Martin A; Troadec C; Boualem A ; et al. (2009) A transposon-induced epigenetic change leads to sex determination in melon.	GP00000188	WIP1 Q8GXA4	Physiology	Promoter insertion of a Transcription Factor Binding Site allowing propagation of heritable methylation	Cucumis melo muskmelon - (species)	Cucumis melo muskmelon - (species) D	CmWIP1	Cucumis melo muskmelon - (species)	Published - Accepted by Curator
CNL9 (=Sr35)	Pathogen resistance	Coding, Complex Change	Triticum monococcum (species)	Domesticated	Linkage Mapping	Saintenac C; Zhang W; Salcedo A ; et al. (2013) Identification of wheat gene Sr35 that confers resistance to Ug99 stem rust race group.	GP00000189	Sr35 S5ABD6	Physiology	Coding variation in the LRR domain - a spontaneous gene conversion between CNL4 and CNL9 is the most parsimonious explanation for the three linked mutations in CNL9	Triticum monococcum (species)	Triticum monococcum (species)	CNL9 (=Sr35)	Triticum monococcum (species)	Published - Accepted by Curator
coatomer protein complex subunit alpha (COPA)	Coloration (coat)	Coding, SNP	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Dorshorst B; Henegar C; Liao X ; et al. (2015) Dominant Red Coat Color in Holstein Cattle Is Associated with a Missense Mutation in the Coatomer Pr[...]	GP00001329	COPA P53621	Morphology	c.C>T p.Arg160Cys	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	coatomer protein complex subunit alpha (COPA)	Bos taurus cattle - (species)	Published - Accepted by Curator
colored plant 1	Coloration (seed)	Cis-regulatory, Unknown	Zea mays (species)	Domesticated	Linkage Mapping	Radicella JP; Brown D; Tolar LA ; et al. (1992) Allelic diversity of the maize B regulatory gene: different leader and promoter sequences of two B a[...]	GP00000190	b1 W5S3Q3	Morphology	Not identified	Zea mays (species)	Zea mays (species)	colored plant 1	Zea mays (species)	Published - Accepted by Curator
CORIN	Coloration (coat)	Coding, SNP	Panthera tigris tiger - (species) D	Intraspecific	Linkage Mapping	Xu X; Dong GX; Schmidt-Küntzel A ; et al. (2017) The genetics of tiger pelage color variations.	GP00002169	Corin Q9Z319	Morphology	c.1759C >T p.H587Y	Panthera tigris tiger - (species)	Panthera tigris tiger - (species) D	CORIN	Panthera tigris tiger - (species)	Published - Accepted by Curator
cortex	Coloration (wing ; industrial melanism ; camouflage)	Cis-regulatory, Insertion	Biston betularia pepper-and-salt moth - (species) D	Intraspecific	Linkage Mapping	Van't Hof AE; Campagne P; Rigden DJ ; et al. (2016) The industrial melanism mutation in British peppered moths is a transposable element.	GP00001804	cort Q960N3	Morphology	Putative transposon insertion within the first intron ; consists of of ~9 kb tandemly repeated 2.3 times + three short tandem subrepeat units	Biston betularia pepper-and-salt moth - (species)	Biston betularia pepper-and-salt moth - (species) D	cortex	Biston betularia pepper-and-salt moth - (species)	Published - Accepted by Curator
cortex	Coloration (wing ; body)	Unknown, Unknown	Bombyx mori domestic silkworm - (species)	Domesticated	Linkage Mapping	Ito K; Katsuma S; Kuwazaki S ; et al. (2016) Mapping and recombination analysis of two moth colour mutations, Black moth and Wild wing spot, in t[...]	GP00002417	cort Q960N3	Morphology	Mapping to a 2-Mb-long region which contains the cortex gene.	Bombyx mori domestic silkworm - (species)	Bombyx mori domestic silkworm - (species)	cortex	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
cortex	Coloration (wing)	Unknown, Unknown	Bombyx mori domestic silkworm - (species)	Domesticated	Linkage Mapping	Ito K; Katsuma S; Kuwazaki S ; et al. (2016) Mapping and recombination analysis of two moth colour mutations, Black moth and Wild wing spot, in t[...]	GP00002418	cort Q960N3	Morphology	Mapping to a 100-kb-long region which contains the cortex gene.	Bombyx mori domestic silkworm - (species)	Bombyx mori domestic silkworm - (species)	cortex	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
Couch potato	Diapause	Coding, SNP	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Schmidt PS; Zhu CT; Das J ; et al. (2008) An amino acid polymorphism in the couch potato gene forms the basis for climatic adaptation in Droso[...]	GP00000191	cpo Q01617	Physiology	Ile462Lys	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Couch potato	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
CPR	Xenobiotic resistance	Gene Amplification, Insertion	Tetranychus urticae two-spotted spider mite - (species) D	Intraspecific	Linkage Mapping	Fotoukkiaii SM; Wybouw N; Kurlovs AH ; et al. (2021) High-resolution genetic mapping reveals cis-regulatory and copy number variation in loci associated [...]	GP00002398	Cpr Q27597	Physiology	Pyflubumide resistant populations are estimated to harbor three CPR copies by two methods, whereas susceptible populations have a single CPR copy.	Tetranychus urticae two-spotted spider mite - (species)	Tetranychus urticae two-spotted spider mite - (species) D	CPR	Tetranychus urticae two-spotted spider mite - (species)	Published - Accepted by Curator
Cryptochrome 2 (CRY2) EDI allele	Flowering time Fruit shape (fruit length) Flower morphology (ovule number per fruit) Fertility (percentage of unfertilized ovules)	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	El-Din El-Assal S; Alonso-Blanco C; Peeters AJ ; et al. (2001) A QTL for flowering time in Arabidopsis reveals a novel allele of CRY2. 3 Additional References Olsen KM; Halldorsdottir SS; Stinchcombe JR (2004) Linkage disequilibrium mapping of Arabidopsis CRY2 flowering time alleles. el-Assal SE; Alonso-Blanco C; Hanhart CJ (2004) Pleiotropic effects of the Arabidopsis cryptochrome 2 allelic variation underlie fruit trait-related[...] Botto JF; Alonso-Blanco C; Garzarón I (2003) The Cape Verde Islands allele of cryptochrome 2 enhances cotyledon unfolding in the absence of blue [...]	GP00000192	CRY2 Q96524	Physiology Morphology Morphology Physiology	V367M	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Cryptochrome 2 (CRY2) EDI allele	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
csf1	Coloration	Cis-regulatory, Unknown	Oryzias woworae (species) D	Interspecific	Linkage Mapping	Ansai S; Mochida K; Fujimoto S ; et al. (2021) Genome editing reveals fitness effects of a gene for sexual dichromatism in Sulawesian fishes.	GP00002366	CSF1 P09603	Morphology		Oryzias celebensis Celebes medaka - (species)	Oryzias woworae (species) D	csf1	Oryzias woworae (species)	Published - Accepted by Curator
CYC-like HaCYC2c	Flower morphology	Cis-regulatory, Insertion	Helianthus annuus common sunflower - (species) D	Intraspecific	Linkage Mapping	Chapman MA; Tang S; Draeger D ; et al. (2012) Genetic analysis of floral symmetry in Van Gogh's sunflowers reveals independent recruitment of CYCL[...]	GP00000193	CYC O49250	Morphology	999bp insertion in promoter	Helianthus annuus common sunflower - (species)	Helianthus annuus common sunflower - (species) D	CYC-like HaCYC2c	Helianthus annuus common sunflower - (species)	Published - Accepted by Curator
CYC-like RAY1/RAY2	Flower morphology	Gene Amplification, Complex Change	Senecio vulgaris (species)	Intraspecific	Linkage Mapping	Kim M; Cui ML; Cubas P ; et al. (2008) Regulatory genes control a key morphological and ecological trait transferred between species.	GP00000194	CYC O49250	Morphology	Gene gain by hybridization	Senecio vulgaris (species)	Senecio vulgaris (species)	CYC-like RAY1/RAY2	Senecio vulgaris (species)	Published - Accepted by Curator
CYCD5;1	Endoreduplication	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Sterken R; Kiekens R; Boruc J ; et al. (2012) Combined linkage and association mapping reveals CYCD5;1 as a quantitative trait gene for endoredupl[...]	GP00000196	CYCD5-1 Q2V3B2	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	CYCD5;1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Cycloidea (Lcyc)	Flower morphology	Cis-regulatory, Epigenetic Change	Linaria vulgaris common toadflax - (species) D	Intraspecific	Linkage Mapping	Cubas P; Vincent C; Coen E (1999) An epigenetic mutation responsible for natural variation in floral symmetry.	GP00000197	CYC O49250	Morphology	Stable methylation	Linaria vulgaris common toadflax - (species)	Linaria vulgaris common toadflax - (species) D	Cycloidea (Lcyc)	Linaria vulgaris common toadflax - (species)	Published - Accepted by Curator
CYP(T)	Flower morphology (style length)	Coding, Insertion N	Primula vulgaris (species) D	Intraspecific	Linkage Mapping	Li J; Cocker JM; Wright J ; et al. (2016) Genetic architecture and evolution of the S locus supergene in Primula vulgaris.	GP00001394	CYP734A1 O48786	Morphology	single base insertion in exon 2 introduces a disruptive premature stop codon N	Primula vulgaris (species)	Primula vulgaris (species) D	CYP(T)	Primula vulgaris (species)	Published - Accepted by Curator
CYP(T)	Flower morphology (style length)	Coding, SNP	Primula vulgaris (species) D	Intraspecific	Linkage Mapping	Li J; Cocker JM; Wright J ; et al. (2016) Genetic architecture and evolution of the S locus supergene in Primula vulgaris.	GP00001395	CYP734A1 O48786	Morphology	G>C p.Asp126His in exon 2	Primula vulgaris (species)	Primula vulgaris (species) D	CYP(T)	Primula vulgaris (species)	Published - Accepted by Curator
Cyp12d1	Xenobiotic resistance (caffeine tolerance)	Gene Amplification, Insertion	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Najarro MA; Hackett JL; Smith BR ; et al. (2015) Identifying Loci Contributing to Natural Variation in Xenobiotic Resistance in Drosophila.	GP00000198	Cyp12d1-d Q7KR10	Physiology	Copy number Variant	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Cyp12d1	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Cyp28d1	Xenobiotic resistance (nicotine ; larval stage)	Gene Amplification, Insertion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Chakraborty M; VanKuren NW; Zhao R ; et al. (2018) Hidden genetic variation shapes the structure of functional elements in Drosophila. 2 Additional References Marriage TN; King EG; Long AD (2014) Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cr[...] Chakraborty M; Emerson JJ; Macdonald SJ (2019) Structural variants exhibit widespread allelic heterogeneity and shape variation in complex traits.	GP00001407	Cyp28d1 Q9VMT5	Physiology	insertion of a partial 1.5kb Accord transposable element and a Cyp28d1 gene tandem duplication (CNV - 3754 bp) that may play complementary role in resistance levels	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Cyp28d1	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Cyp28d1-Cyp28d2	Xenobiotic resistance (nicotine ; larval stage)	Gene Amplification, Insertion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Chakraborty M; Emerson JJ; Macdonald SJ ; et al. (2019) Structural variants exhibit widespread allelic heterogeneity and shape variation in complex traits.	GP00002114	Cyp28d1 Q9VMT5	Physiology	duplication of a 15297-bp region; which encompasses 5 genes: Msp300 Cyp28d2 Cyp28d1 CG7742 and CG14034. Associated with increased expression of Cyp28d1 gene expression and increased nicotin resistance	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Cyp28d1-Cyp28d2	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
CYP2J19	Coloration (feathers)	Unknown, Unknown	Serinus canaria common canary - (species)	Interspecific	Linkage Mapping	Lopes RJ; Johnson JD; Toomey MB ; et al. (2016) Genetic Basis for Red Coloration in Birds.	GP00000201	CYP2J2 P51589	Morphology	unknown	Spinus cucullatus red siskin - (species)	Serinus canaria common canary - (species)	CYP2J19	Serinus canaria common canary - (species)	Published - Accepted by Curator
CYP2J19	Coloration (red vs yellow beak)	Gene Loss, Deletion N	Taeniopygia guttata zebra finch - (species) D	Domesticated	Linkage Mapping	Mundy NI; Stapley J; Bennison C ; et al. (2016) Red Carotenoid Coloration in the Zebra Finch Is Controlled by a Cytochrome P450 Gene Cluster.	GP00000202	CYP2J2 P51589	Morphology	13kb deletion including complete loss of the CYP2J19A copy and cis-regulatory effects on CYP2J19B N	Taeniopygia guttata zebra finch - (species)	Taeniopygia guttata zebra finch - (species) D	CYP2J19	Taeniopygia guttata zebra finch - (species)	Published - Accepted by Curator
CYP392E8	Xenobiotic resistance	Cis-regulatory, Unknown	Tetranychus urticae two-spotted spider mite - (species) D	Intraspecific	Linkage Mapping	Fotoukkiaii SM; Wybouw N; Kurlovs AH ; et al. (2021) High-resolution genetic mapping reveals cis-regulatory and copy number variation in loci associated [...]	GP00002397		Physiology	increase in transcription of CYP392E8.	Tetranychus urticae two-spotted spider mite - (species)	Tetranychus urticae two-spotted spider mite - (species) D	CYP392E8	Tetranychus urticae two-spotted spider mite - (species)	Published - Accepted by Curator
cyp6d2	Xenobiotic resistance (chemotherapeutic agent, camptothecin)	Coding, SNP	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Thomas AM; Hui C; South A ; et al. (2013) Common variants of Drosophila melanogaster Cyp6d2 cause camptothecin sensitivity and synergize with [...]	GP00001983	Cyp6g2 Q9V675	Physiology	G>C in CATAGgtaagga...caagCTCT so that intron 3 is not spliced and the codon GCT (spanning the intron) is transformed into CCT. The splicing is defective and intron 3 is transcribed and results in a stop codon and a protein truncated from its native C terminal part.	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	cyp6d2	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
cyp6g1	Xenobiotic resistance (insecticide)	4 Mutations: Insertion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Chung H; Bogwitz MR; McCart C ; et al. (2007) Cis-regulatory elements in the Accord retrotransposon result in tissue-specific expression of the Dr[...]	GP00000207	Cyp6g1 Q9V674	Physiology	4 mutations	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	cyp6g1	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
CYP6P9; CYP6P4 cluster	Xenobiotic resistance (insecticide)	5 Mutations:	Anopheles funestus African malaria mosquito - (species) D	Intraspecific	Linkage Mapping	Wondji CS; Irving H; Morgan J ; et al. (2009) Two duplicated P450 genes are associated with pyrethroid resistance in Anopheles funestus, a major m[...] 2 Additional References Weedall GD; Mugenzi LMJ; Menze BD (2019) A cytochrome P450 allele confers pyrethroid resistance on a major African malaria vector, reducing i[...] Wondji CS; Hearn J; Irving H (2022) RNAseq-based gene expression profiling of the Anopheles funestus pyrethroid-resistant strain FUMOZ h[...]	GP00000209	Q2YH43	Physiology	5 mutations	Anopheles funestus African malaria mosquito - (species)	Anopheles funestus African malaria mosquito - (species) D	CYP6P9; CYP6P4 cluster	Anopheles funestus African malaria mosquito - (species)	Published - Accepted by Curator
CYP76AD1	Coloration	Coding, Insertion N	Beta vulgaris (species) D	Domesticated	Linkage Mapping	Hatlestad GJ; Sunnadeniya RM; Akhavan NA ; et al. (2012) The beet R locus encodes a new cytochrome P450 required for red betalain production.	GP00000210	CYP76AD1 I3PFJ5	Morphology	5bp insertion resulting in frameshift N	Beta vulgaris (species)	Beta vulgaris (species) D	CYP76AD1	Beta vulgaris (species)	Published - Accepted by Curator
CYP79D15	Toxicity levels (cyanogenic glucoside)	Gene Loss, Deletion N	Trifolium repens white clover - (species) D	Intraspecific	Linkage Mapping	Olsen KM; Hsu SC; Small LL (2008) Evidence on the molecular basis of the Ac/ac adaptive cyanogenesis polymorphism in white clover (Tri[...] 1 Additional References Olsen KM; Kooyers NJ; Small LL (2013) Recurrent gene deletions and the evolution of adaptive cyanogenesis polymorphisms in white clover (T[...]	GP00000211	CYP79D15 B2Y2T9	Physiology	Gene deletion N	Trifolium repens white clover - (species)	Trifolium repens white clover - (species) D	CYP79D15	Trifolium repens white clover - (species)	Published - Accepted by Curator
CYP81F2	Glucosinolate content Herbivore resistance (aphids)	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Pfalz M; Vogel H; Kroymann J (2009) The gene controlling the indole glucosinolate modifier1 quantitative trait locus alters indole gluco[...]	GP00000212	CYP81F2 Q9LVD6	Physiology Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	CYP81F2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
CYP9A186	Xenobiotic resistance (insecticide; avermectin; emamectin benzoate; abamectin)	Coding, SNP	Spodoptera exigua beet armyworm - (species) D	Intraspecific	Linkage Mapping	Zuo Y; Shi Y; Zhang F ; et al. (2021) Genome mapping coupled with CRISPR gene editing reveals a P450 gene confers avermectin resistance in[...]	GP00002393	CYP9A186 A0A8E4AAI2	Physiology	Heterologous expression and in vitro functional assays further confirm that a natural substitution (F116V) found in the substrate recognition site 1 (SRS1) of the CYP9A186 protein results in enhanced metabolism of EB and abamectin	Spodoptera exigua beet armyworm - (species)	Spodoptera exigua beet armyworm - (species) D	CYP9A186	Spodoptera exigua beet armyworm - (species)	Published - Accepted by Curator
Dat	Coloration (puparium)	Unknown, Unknown	Drosophila virilis (species)	Interspecific	Linkage Mapping	Ahmed-Braimah YH; Sweigart AL (2015) A single gene causes an interspecific difference in pigmentation in Drosophila.	GP00001403	AANAT1 Q94521	Morphology	unknown	Drosophila americana (species)	Drosophila virilis (species)	Dat	Drosophila virilis (species)	Published - Accepted by Curator
DCAR-032551	Carotenoid content	Coding, Insertion N	Daucus carota carrot - (species) D	Domesticated	Linkage Mapping	Iorizzo M; Ellison S; Senalik D ; et al. (2016) A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid[...]	GP00001568	DCAR_032551 A0A162A3G8	Morphology	A 212-nt insertion in exon 2 that creates a frameshift mutation N	Daucus carota carrot - (species)	Daucus carota carrot - (species) D	DCAR-032551	Daucus carota carrot - (species)	Published - Accepted by Curator
DEEPER ROOTING 1	Drought tolerance Root growth	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Uga Y; Sugimoto K; Ogawa S ; et al. (2013) Control of root system architecture by DEEPER ROOTING 1 increases rice yield under drought condition[...]	GP00000215	Dro1 Q69P88	Physiology Morphology	1bp deletion within exon 4 N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	DEEPER ROOTING 1	Oryza sativa rice - (species)	Published - Accepted by Curator
Delta	Bristle number (abdomen)	Cis-regulatory, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Long AD; Lyman RF; Langley CH ; et al. (1998) Two sites in the Delta gene region contribute to naturally occurring variation in bristle number in [...] 1 Additional References Genissel A; Pastinen T; Dowell A (2004) No evidence for an association between common nonsynonymous polymorphisms in delta and bristle numbe[...]	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 Genissel A; Pastinen T; Dowell A (2004) No evidence for an association between common nonsynonymous polymorphisms in delta and bristle numbe[...]	GP00000217	Dl P10041	Morphology	unknown; associated site in intron 2	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Delta	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Delta-1-pyrroline-5-carboxylate synthase A	Drought response (drought-induced proline accumulation)	2 Mutations: Coding	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Kesari R; Lasky JR; Villamor JG ; et al. (2012) Intron-mediated alternative splicing of Arabidopsis P5CS1 and its association with natural variation[...]	GP00001280	P5CSA P54887	Physiology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Delta-1-pyrroline-5-carboxylate synthase A	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
DEP1	Grain yield	Coding, Indel N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Huang X; Qian Q; Liu Z ; et al. (2009) Natural variation at the DEP1 locus enhances grain yield in rice.	GP00000218	P0046G12.12-1 Q67UU9	Morphology	replacement of a 637bp stretch of the middle of exon5 by a 12-bp sequence creating a premature stop codon and consequently a loss of 230 residues from the C-terminus N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	DEP1	Oryza sativa rice - (species)	Published - Accepted by Curator
DEP1 (DENSE AND ERECT PANICLES 1)	Nitrogen use (metabolism)	Coding, SNP	Oryza sativa Japonica Group Japanese rice - (no rank)	Domesticated	Linkage Mapping	Sun H; Qian Q; Wu K ; et al. (2014) Heterotrimeric G proteins regulate nitrogen-use efficiency in rice.	GP00001376	P0046G12.12-1 Q67UU9	Physiology	p.Cys105Tyr affecting affinity interaction between the GGL domain of DEP1 and RGB1 subunit	Oryza sativa Indica Group long-grained rice - (no rank)	Oryza sativa Japonica Group Japanese rice - (no rank)	DEP1 (DENSE AND ERECT PANICLES 1)	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
desaturase 2 (desat2)	Pheromone production	Cis-regulatory, Deletion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Takahashi A; Tsaur SC; Coyne JA ; et al. (2001) The nucleotide changes governing cuticular hydrocarbon variation and their evolution in Drosophila m[...] 1 Additional References Dallerac R; Labeur C; Jallon JM (2000) A delta 9 desaturase gene with a different substrate specificity is responsible for the cuticular di[...]	GP00000221	Desat2 Q9VG68	Physiology	16bp deletion about 150bp upstream of transcription start site	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	desaturase 2 (desat2)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
diacylglycerol acyltransferase 1 (DGAT1)	Milk fat content	Coding, SNP	Bos taurus cattle - (species)	Domesticated	Linkage Mapping	Grisart B; Coppieters W; Farnir F ; et al. (2002) Positional candidate cloning of a QTL in dairy cattle: identification of a missense mutation in the [...] 1 Additional References Grisart B; Farnir F; Karim L (2004) Genetic and functional confirmation of the causality of the DGAT1 K232A quantitative trait nucleotid[...]	GP00000222	Dgat1 Q9Z2A7	Physiology	K232A	Bos taurus cattle - (species)	Bos taurus cattle - (species)	diacylglycerol acyltransferase 1 (DGAT1)	Bos taurus cattle - (species)	Published - Accepted by Curator
diacylglycerol acyltransferase 1-2 (DGAT1-2)	Oil composition Oil yield	Coding, Deletion	Zea mays (species) D	Domesticated	Linkage Mapping	Zheng P; Allen WB; Roesler K ; et al. (2008) A phenylalanine in DGAT is a key determinant of oil content and composition in maize.	GP00000223	DGAT1-2 B0LF77	Physiology Physiology	Deletion of amino acid F469	Zea mays (species)	Zea mays (species) D	diacylglycerol acyltransferase 1-2 (DGAT1-2)	Zea mays (species)	Published - Accepted by Curator
dihydroflavonol reductase (DFR)	Coloration (flowers)	Coding, SNP	Iochroma cyaneum (species)	Intraspecific	Linkage Mapping	Smith SD; Rausher MD (2011) Gene loss and parallel evolution contribute to species difference in flower color.	GP00000225	DFRA P51102	Morphology	12 candidate a.a. substitution in cluding one at a residue known to influence substrate specificity	Iochroma cyaneum (species)	Iochroma cyaneum (species)	dihydroflavonol reductase (DFR)	Iochroma cyaneum (species)	Published - Accepted by Curator
dihydroflavonol reductase (DFR)	Coloration (tuber skin)	Coding, Unknown	Solanum tuberosum potato - (species)	Domesticated	Linkage Mapping	De Jong WS; De Jong DM; De Jong H ; et al. (2003) An allele of dihydroflavonol 4-reductase associated with the ability to produce red anthocyanin pigm[...] 1 Additional References Zhang Y; Cheng S; De Jong D (2009) The potato R locus codes for dihydroflavonol 4-reductase.	GP00000226	DFRA P51102	Morphology	unknown; 10 a.a variable positions	Solanum tuberosum potato - (species)	Solanum tuberosum potato - (species)	dihydroflavonol reductase (DFR)	Solanum tuberosum potato - (species)	Published - Accepted by Curator
Distal-less	Coloration (wing)	Cis-regulatory, Unknown	Bicyclus anynana squinting bush brown - (species)	Domesticated	Linkage Mapping	Beldade P; Brakefield PM; Long AD (2002) Contribution of Distal-less to quantitative variation in butterfly eyespots.	GP00000229	Dll P20009	Morphology	unknown	Bicyclus anynana squinting bush brown - (species)	Bicyclus anynana squinting bush brown - (species)	Distal-less	Bicyclus anynana squinting bush brown - (species)	Published - Accepted by Curator
Distorter on the X (Dox)	Sex determination (sex ratio distortion)	Coding, Deletion	Drosophila simulans (species) D	Intraspecific	Linkage Mapping	Tao Y; Araripe L; Kingan SB ; et al. (2007) A sex-ratio meiotic drive system in Drosophila simulans. II: an X-linked distorter.	GP00001969		Physiology	Deletion of 105bp, resulting in the loss of exon III, which deletes one of the 42bp elements that is tandemly repeated in wild-type Dsim\Dox.	Drosophila simulans (species)	Drosophila simulans (species) D	Distorter on the X (Dox)	Drosophila simulans (species)	Published - Accepted by Curator
DMRT3	Gait (ability to pace)	Coding, SNP N	Equus caballus horse - (species)	Domesticated	Linkage Mapping	Andersson LS; Larhammar M; Memic F ; et al. (2012) Mutations in DMRT3 affect locomotion in horses and spinal circuit function in mice. 1 Additional References Petersen JL; Mickelson JR; Rendahl AK (2013) Genome-wide analysis reveals selection for important traits in domestic horse breeds.	GP00000230	DMRT3 F6W2R2	Behavior	g.22999655C>A p.S301* Premature stop codon (Ser301Stop) resulting in truncated protein: a single base change at nucleotide position chr23:22999655 causing a premature stop at codon 301 in DMRT3 (DMRT3_Ser301STOP). The allele is expected to encode a truncated protein lacking 1 N	Equus caballus horse - (species)	Equus caballus horse - (species)	DMRT3	Equus caballus horse - (species)	Published - Accepted by Curator
DOG1 (DELAY OF GERMINATION 1)	Seed dormancy	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Bentsink L; Jowett J; Hanhart CJ ; et al. (2006) Cloning of DOG1, a quantitative trait locus controlling seed dormancy in Arabidopsis. 3 Additional References Atwell S; Huang YS; Vilhjálmsson BJ (2010) Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Horton MW; Hancock AM; Huang YS (2012) Genome-wide patterns of genetic variation in worldwide Arabidopsis thaliana accessions from the RegM[...] Nakabayashi K; Bartsch M; Ding J (2015) Seed Dormancy in Arabidopsis Requires Self-Binding Ability of DOG1 Protein and the Presence of Multi[...]	GP00000231	DOG1 A0SVK0	Physiology	Not identified (possibly polyallelic as each cross to the Ler accession showed different DOG1 effects)	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	DOG1 (DELAY OF GERMINATION 1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Dopa-decarboxylase	Bristle number (abdomen)	Cis-regulatory, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Mackay TF; Lyman RF (2005) Drosophila bristles and the nature of quantitative genetic variation.	GP00000232	Ddc P05031	Morphology	Promoter variation	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Dopa-decarboxylase	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Dopa-decarboxylase	Lifespan	Unknown, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	De Luca M; Roshina NV; Geiger-Thornsberry GL ; et al. (2003) Dopa decarboxylase (Ddc) affects variation in Drosophila longevity.	GP00000233	Ddc P05031	Physiology	unknown	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Dopa-decarboxylase	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Dopamine N-acetyltransferase (Dat)	Coloration (puparium)	Unknown, Unknown	Drosophila virilis (species) D	Interspecific	Linkage Mapping	Ahmed-Braimah YH; Sweigart AL (2015) A single gene causes an interspecific difference in pigmentation in Drosophila.	GP00000234	AANAT1 Q94521	Morphology	Not identified ; 11kb mapped interval including regulatory region and first exon	Drosophila americana (species)	Drosophila virilis (species) D	Dopamine N-acetyltransferase (Dat)	Drosophila virilis (species)	Published - Accepted by Curator
Doublesex	Coloration (wing ; Batesian mimicry)	Unknown, Unknown	Papilio polytes common Mormon - (species)	Intraspecific	Linkage Mapping	Kunte K; Zhang W; Tenger-Trolander A ; et al. (2014) doublesex is a mimicry supergene. 2 Additional References Nishikawa H; Iijima T; Kajitani R (2015) A genetic mechanism for female-limited Batesian mimicry in Papilio butterfly. Zhang W; Westerman E; Nitzany E (2017) Tracing the origin and evolution of supergene mimicry in butterflies.	GP00001966	dsx P23023	Morphology	More than 1000 nucleotide substitutions differentiate mimetic and non-mimetic dsx alleles. The non-mimetic Cyrus Dsx protein folds much like other insects (such as Bombyx mori) whereas the mimetic polytes protein structure is highly divergent. Knockdown experiments show that female-specific dsx isoforms expressed from the inverted H allele (dsx(H)) induce mimetic coloration patterns and simultaneously repress non-mimetic patterns.	Papilio polytes common Mormon - (species)	Papilio polytes common Mormon - (species)	Doublesex	Papilio polytes common Mormon - (species)	Published - Accepted by Curator
Doublesex (or neighbouring gene prospero)	Wing shape (sex-specific)	Cis-regulatory, Unknown	Nasonia giraulti (species)	Interspecific	Linkage Mapping	Loehlin DW; Oliveira DC; Edwards R ; et al. (2010) Non-coding changes cause sex-specific wing size differences between closely related species of Nason[...]	GP00000236	dsx P23023	Morphology	various	Nasonia vitripennis jewel wasp - (species)	Nasonia giraulti (species)	Doublesex (or neighbouring gene prospero)	Nasonia giraulti (species)	Published - Accepted by Curator
drh-1	Pathogen resistance (viral immunity)	Coding, Deletion	Caenorhabditis elegans (species)	Intraspecific	Linkage Mapping	Ashe A; Bélicard T; Le Pen J ; et al. (2013) A deletion polymorphism in the Caenorhabditis elegans RIG-I homolog disables viral RNA dicing and an[...]	GP00001308	drh-1 G5EDI8	Physiology	159 base deletion in CDS resulting in truncated but potentially non-null protein	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	drh-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
Drip	Fertility	Cis-regulatory, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Bergland AO; Chae HS; Kim YJ ; et al. (2012) Fine-scale mapping of natural variation in fly fecundity identifies neuronal domain of expression an[...]	GP00000237	Drip Q9V5Z7	Physiology	unknown	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Drip	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
ds1	Pathogen resistance	Unknown, Unknown	Sorghum bicolor sorghum - (species)	Domesticated	Linkage Mapping	Kawahigashi H; Kasuga S; Ando T ; et al. (2011) Positional cloning of ds1, the target leaf spot resistance gene against Bipolaris sorghicola in sorg[...]	GP00000238	ds1 K0IXC4	Physiology	unknown	Sorghum bicolor sorghum - (species)	Sorghum bicolor sorghum - (species)	ds1	Sorghum bicolor sorghum - (species)	Published - Accepted by Curator
DTH2	Flowering time	2 Mutations: Coding SNP	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Wu W; Zheng XM; Lu G ; et al. (2013) Association of functional nucleotide polymorphisms at DTH2 with the northward expansion of rice cult[...]	GP00000239	DTH2 O82118	Physiology	2 mutations	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	DTH2	Oryza sativa rice - (species)	Published - Accepted by Curator
dwarf-8 (d8)	Plant size (dwarfism)	Coding, Deletion N	Zea mays (species) D	Domesticated	Linkage Mapping	Peng J; Richards DE; Hartley NM ; et al. (1999) 'Green revolution' genes encode mutant gibberellin response modulators. 2 Additional References Camus-Kulandaivelu L; Veyrieras JB; Madur D (2006) Maize adaptation to temperate climate: relationship between population structure and polymorphism in[...] Thornsberry JM; Goodman MM; Doebley J (2001) Dwarf8 polymorphisms associate with variation in flowering time.	GP00000241	D8 Q9ST48	Morphology	330bp deletion to V84 N	Zea mays (species)	Zea mays (species) D	dwarf-8 (d8)	Zea mays (species)	Published - Accepted by Curator
EARLY FLOWERING 3 (here = Mat-a)	Flowering time	Coding, Deletion N	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Zakhrabekova S; Gough SP; Braumann I ; et al. (2012) Induced mutations in circadian clock regulator Mat-a facilitated short-season adaptation and range e[...]	GP00000243	ELF3 O82804	Physiology	4bp deletion resulting in truncated protein ; this deletion seem to have evolved multiple times (fragile site?) N	Hordeum vulgare (species)	Hordeum vulgare (species) D	EARLY FLOWERING 3 (here = Mat-a)	Hordeum vulgare (species)	Published - Accepted by Curator
EARLY FLOWERING 3(ELF3)	Flowering time	Coding, Indel	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Jiménez-Gómez JM; Wallace AD; Maloof JN (2010) Network analysis identifies ELF3 as a QTL for the shade avoidance response in Arabidopsis. 3 Additional References Chan EK; Rowe HC; Corwin JA (2011) Combining genome-wide association mapping and transcriptional networks to identify novel genes contr[...] Coluccio MP; Sanchez SE; Kasulin L (2011) Genetic mapping of natural variation in a shade avoidance response: ELF3 is the candidate gene for a[...] Undurraga SF; Press MO; Legendre M (2012) Background-dependent effects of polyglutamine variation in the Arabidopsis thaliana gene ELF3.	GP00000244	ELF3 O82804	Physiology	Background-dependent effects of extensive polyQ coding variation	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	EARLY FLOWERING 3(ELF3)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
EARLY FLOWERING 3(ELF3)	Flowering time (latitudinal adaptation)	Coding, Deletion N	Glycine max soybean - (species) D	Domesticated	Linkage Mapping	Lu S; Zhao X; Hu Y ; et al. (2017) Natural variation at the soybean J locus improves adaptation to the tropics and enhances yield.	GP00001683	CYP75B1 Q9SD85	Physiology	recessive allele responsible for the LJ trait - 10-bp deletion predicted to cause a frameshift resulting in premature termination of translation after 195 amino acids in the 714-amino-acid protein N	Glycine max soybean - (species)	Glycine max soybean - (species) D	EARLY FLOWERING 3(ELF3)	Glycine max soybean - (species)	Published - Accepted by Curator
EARLY FLOWERING 3(ELF3) [possible pseudo-replicate]	Plant growth (hypocotyl elongation ; temperature-dependent)	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Raschke A; Ibañez C; Ullrich KK ; et al. (2015) Natural variants of ELF3 affect thermomorphogenesis by transcriptionally modulating PIF4-dependent a[...]	GP00001245	ELF3 O82804	Morphology	A362V	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	EARLY FLOWERING 3(ELF3) [possible pseudo-replicate]	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
EARLY FLOWERING 3/ EARLY MATURITY 8	Flowering time	Coding, SNP N	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Faure S; Turner AS; Gruszka D ; et al. (2012) Mutation at the circadian clock gene EARLY MATURITY 8 adapts domesticated barley (Hordeum vulgare) t[...]	GP00000245	ELF3 O82804	Physiology	Premature stop codon; C-to-T point mutation in exon 2 N	Hordeum vulgare (species)	Hordeum vulgare (species)	EARLY FLOWERING 3/ EARLY MATURITY 8	Hordeum vulgare (species)	Published - Accepted by Curator
EARLY FLOWERING 3/ EARLYMATURITY8	Flowering time	Coding, Deletion N	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Faure S; Turner AS; Gruszka D ; et al. (2012) Mutation at the circadian clock gene EARLY MATURITY 8 adapts domesticated barley (Hordeum vulgare) t[...]	GP00000246	ELF3 O82804	Physiology	4bp deletion resulting in truncated protein ; this deletion seem to have evolved multiple times (fragile site?) N	Hordeum vulgare (species)	Hordeum vulgare (species) D	EARLY FLOWERING 3/ EARLYMATURITY8	Hordeum vulgare (species)	Published - Accepted by Curator
EARLY FLOWERING 3/Hd17	Flowering time	Unknown, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Matsubara K; Ogiso-Tanaka E; Hori K ; et al. (2012) Natural variation in Hd17, a homolog of Arabidopsis ELF3 that is involved in rice photoperiodic flow[...]	GP00000247	ELF3 O82804	Physiology	unknown	Oryza sativa rice - (species)	Oryza sativa rice - (species)	EARLY FLOWERING 3/Hd17	Oryza sativa rice - (species)	Published - Accepted by Curator
Early flowering1 (EL1)	Flowering time (heading date)	Coding, SNP	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Linkage Mapping	Kwon CT; Yoo SC; Koo BH ; et al. (2014) Natural variation in Early flowering1 contributes to early flowering in japonica rice under long day[...]	GP00001636	HD16 Q852L0	Physiology	G476C p.Gly159Ala in the serine/threonine kinase domain leading to non-functional protein	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	Early flowering1 (EL1)	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
Early flowering1 (EL1)	Flowering time (heading date)	Coding, SNP	Oryza sativa Japonica Group Japanese rice - (no rank) D	Domesticated	Linkage Mapping	Kwon CT; Yoo SC; Koo BH ; et al. (2014) Natural variation in Early flowering1 contributes to early flowering in japonica rice under long day[...]	GP00001637	HD16 Q852L0	Physiology	G991A p.Ala331Thr in the serine/threonine kinase domain leading to non-functional protein	Oryza sativa rice - (species)	Oryza sativa Japonica Group Japanese rice - (no rank) D	Early flowering1 (EL1)	Oryza sativa Japonica Group Japanese rice - (no rank)	Published - Accepted by Curator
ebony	Coloration (abdomen)	Cis-regulatory, Unknown	Drosophila novamexicana (species) D	Intraspecific	Linkage Mapping	Wittkopp PJ; Stewart EE; Arnold LL ; et al. (2009) Intraspecific polymorphism to interspecific divergence: genetics of pigmentation in Drosophila. 1 Additional References Lamb Abigail M; Wang Zinan; Simmer Patricia (2020 ) ebony affects pigmentation divergence and cuticular hydrocarbons in Drosophila americana and D. nova[...]	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 Endler L; Gibert JM; Nolte V (2018) Pleiotropic effects of regulatory variation in tan result in correlation of two pigmentation traits [...]	GP00000249	e O76858	Morphology	Not identified	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	ebony	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
ebony	Coloration (posterior abdomen)	Cis-regulatory, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Takahashi A; Takano-Shimizu T (2011) Divergent enhancer haplotype of ebony on inversion In(3R)Payne associated with pigmentation variatio[...]	GP00000252	e O76858	Morphology	17 nucleotide sites and 2 indels in complete association with the thoracic trident pigmentation intensity in a 13kb region	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	ebony	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
ebony	Coloration (posterior abdomen)	5 Mutations: Cis-regulatory SNP	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Rebeiz M; Pool JE; Kassner VA ; et al. (2009) Stepwise modification of a modular enhancer underlies adaptation in a Drosophila population.	GP00000253	e O76858	Morphology	5 mutations	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	ebony	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
ebony	Coloration (male-specific)	Cis-regulatory, SNP	Drosophila malerkotliana (species)	Intraspecific	Linkage Mapping	Signor SA; Liu Y; Rebeiz M ; et al. (2016) Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.	GP00001544	e O76858	Morphology	5 changes including 4 SNP and 1bp indel in the first intron	Drosophila malerkotliana (species)	Drosophila malerkotliana (species)	ebony	Drosophila malerkotliana (species)	Published - Accepted by Curator
ebony	Coloration (male-specific)	Cis-regulatory, Unknown	Drosophila pseudoananassae (species)	Intraspecific	Linkage Mapping	Signor SA; Liu Y; Rebeiz M ; et al. (2016) Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.	GP00001545	e O76858	Morphology	unknown	Drosophila pseudoananassae (species)	Drosophila pseudoananassae (species)	ebony	Drosophila pseudoananassae (species)	Published - Accepted by Curator
ebony	Coloration (male-specific)	Unknown, Unknown	Drosophila merina (species)	Interspecific	Linkage Mapping	Signor SA; Liu Y; Rebeiz M ; et al. (2016) Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.	GP00001546	e O76858	Morphology	unknown	Drosophila ercepeae (species)	Drosophila merina (species)	ebony	Drosophila merina (species)	Published - Accepted by Curator
ebony	Coloration (male-specific)	Unknown, Unknown	Drosophila bipectinata (species)	Interspecific	Linkage Mapping	Signor SA; Liu Y; Rebeiz M ; et al. (2016) Genetic Convergence in the Evolution of Male-Specific Color Patterns in Drosophila.	GP00001547	e O76858	Morphology	unknown	Drosophila parabipectinata (species)	Drosophila bipectinata (species)	ebony	Drosophila bipectinata (species)	Published - Accepted by Curator
ebony	Coloration (abdomen; male)	Cis-regulatory, Insertion	Drosophila santomea (species) D	Interspecific	Linkage Mapping	Liu Y; Ramos-Womack M; Han C ; et al. (2019) Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution.	GP00002024	e O76858	Morphology	insertion of a partial 481 bp fragment related to a transposable element of the helitron class - maybe other causing mutations as well at this ebony locus (including one fixed amino acid change whose phenotypic effect has not been investigated) - increased expression associated with lighter pigmentation	Drosophila yakuba (species)	Drosophila santomea (species) D	ebony	Drosophila santomea (species)	Published - Accepted by Curator
Ectodysplasin (EDA)	Dermal bone (loss of armor plates)	Cis-regulatory, Unknown	Gasterosteus aculeatus three-spined stickleback - (species) D	Interspecific	Linkage Mapping	Colosimo PF; Hosemann KE; Balabhadra S ; et al. (2005) Widespread parallel evolution in sticklebacks by repeated fixation of Ectodysplasin alleles. 2 Additional References Jones FC; Grabherr MG; Chan YF (2012) The genomic basis of adaptive evolution in threespine sticklebacks. O'Brown NM; Summers BR; Jones FC (2015) A recurrent regulatory change underlying altered expression and Wnt response of the stickleback armo[...]	GP00000254	Eda O54693	Morphology	large haplotype- includes a T-> G regulatory change that affect expression based on differential responsiveness to Wnt signaling	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	Ectodysplasin (EDA)	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
EDN3	Coloration (hyperpigmentation)	Gene Amplification, Complex Change	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Dorshorst B; Molin AM; Rubin CJ ; et al. (2011) A complex genomic rearrangement involving the endothelin 3 locus causes dermal hyperpigmentation in [...] 3 Additional References Johansson AM; Nelson RM (2015) Characterization of genetic diversity and gene mapping in two Swedish local chicken breeds. Han R; Yang P; Tian Y (2014) Identification and functional characterization of copy number variations in diverse chicken breeds. Dharmayanthi AB; Terai Y; Sulandari S (2017) The origin and evolution of fibromelanosis in domesticated chickens: Genomic comparison of Indonesia[...]	GP00000258	EDN3 P14138	Morphology	Large duplication	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	EDN3	Gallus gallus chicken - (species)	Published - Accepted by Curator
EGFR	Wing shape (length)	Unknown, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Dworkin I; Palsson A; Gibson G (2005) Replication of an Egfr-wing shape association in a wild-caught cohort of Drosophila melanogaster. 1 Additional References Palsson A; Dodgson J; Dworkin I (2005) Tests for the replication of an association between Egfr and natural variation in Drosophila melanog[...]	GP00000259	Egfr P04412	Morphology	unknown	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	EGFR	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Ehd1 (Response regulator)	Flowering time	Coding, SNP	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Doi K; Izawa T; Fuse T ; et al. (2004) Ehd1, a B-type response regulator in rice, confers short-day promotion of flowering and controls FT-[...]	GP00000263	EHD1 Q9H4M9	Physiology	G218R in highly conserved region in GARP domain	Oryza glaberrima African rice - (species)	Oryza sativa rice - (species)	Ehd1 (Response regulator)	Oryza sativa rice - (species)	Published - Accepted by Curator
END3	Temperature tolerance Virulence	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Intraspecific	Linkage Mapping	Steinmetz LM; Sinha H; Richards DR ; et al. (2002) Dissecting the architecture of a quantitative trait locus in yeast. 1 Additional References Sinha H; Nicholson BP; Steinmetz LM (2006) Complex genetic interactions in a quantitative trait locus.	GP00000267	END3 P39013	Physiology Physiology	S258N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	END3	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
END3	Temperature tolerance Virulence	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Intraspecific	Linkage Mapping	Steinmetz LM; Sinha H; Richards DR ; et al. (2002) Dissecting the architecture of a quantitative trait locus in yeast. 1 Additional References Sinha H; Nicholson BP; Steinmetz LM (2006) Complex genetic interactions in a quantitative trait locus.	GP00000268	END3 P39013	Physiology Physiology	D268N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	END3	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
Endothelin receptor B	Coloration (feathers ; white-spotting)	Coding, SNP	Coturnix japonica Japanese quail - (species) D	Domesticated	Linkage Mapping	Miwa M; Inoue-Murayama M; Aoki H ; et al. (2007) Endothelin receptor B2 (EDNRB2) is associated with the panda plumage colour mutation in Japanese qua[...]	GP00000270	Ednrb P48302	Morphology	c.995G>A p.R332H	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species) D	Endothelin receptor B	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
Endothelin receptor B2	Coloration (feathers)	Coding, SNP	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Kinoshita K; Akiyama T; Mizutani M ; et al. (2014) Endothelin receptor B2 (EDNRB2) is responsible for the tyrosinase-independent recessive white (mo(w)[...]	GP00001360	EDNRB2 W8VUK4	Morphology	c.1008G>T p.Cys244Phe	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Endothelin receptor B2	Gallus gallus chicken - (species)	Published - Accepted by Curator
Endothelin receptor B2	Coloration (feathers)	Coding, SNP	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Kinoshita K; Akiyama T; Mizutani M ; et al. (2014) Endothelin receptor B2 (EDNRB2) is responsible for the tyrosinase-independent recessive white (mo(w)[...]	GP00001361	EDNRB2 W8VUK4	Morphology	c.G1272A p.Arg332His	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Endothelin receptor B2	Gallus gallus chicken - (species)	Published - Accepted by Curator
engrailed	Coloration (wing ; Batesian mimicry)	Cis-regulatory, Unknown	Papilio dardanus African swallowtail butterfly - (species) D	Intraspecific	Linkage Mapping	Timmermans MJTN; Srivathsan A; Collins S ; et al. (2020) Mimicry diversification in Papilio dardanus via a genomic inversion in the regulatory region of engr[...]	GP00002428	en P02836	Morphology	Association with many nucleotide changes in a cis-regulatory region of engrailed. The diverged region exhibits a discrete chromosomal inversion of 40 kb relative to the ancestral orientation that is associated with the cenea morph, but not with the bottom-recessive hippocoonides morph or with non-mimetic allopatric populations.	Papilio dardanus African swallowtail butterfly - (species)	Papilio dardanus African swallowtail butterfly - (species) D	engrailed	Papilio dardanus African swallowtail butterfly - (species)	Published - Accepted by Curator
Enhanced shoot growth under mannitol stress 2 (EGM2)	Plant growth (shoot growth under stress)	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Trontin C; Kiani S; Corwin JA ; et al. (2014) A pair of receptor-like kinases is responsible for natural variation in shoot growth response to man[...]	GP00001630	At1g11300 Q9SXB4	Physiology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Enhanced shoot growth under mannitol stress 2 (EGM2)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
EOMES (eomesodermin)	Bird head comb (reduced)	Gene Amplification, Insertion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Dorshorst B; Harun-Or-Rashid M; Bagherpoor AJ ; et al. (2015) A genomic duplication is associated with ectopic eomesodermin expression in the embryonic chicken co[...]	GP00000271	Eomes O54839	Morphology	a 20 Kb tandem duplication containing several conserved putative regulatory elements located 200 Kb upstream of the eomesodermin gene	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	EOMES (eomesodermin)	Gallus gallus chicken - (species)	Published - Accepted by Curator
ephrin-a4	Coloration (scales)	Unknown, Unknown	Tropheops sp. 'red cheek' (species)	Interspecific	Linkage Mapping	Albertson RC; Powder KE; Hu Y ; et al. (2014) Genetic basis of continuous variation in the levels and modular inheritance of pigmentation in cichl[...]	GP00001420	EFNA4 P52798	Morphology	unknown	Labeotropheus fuelleborni blue mbuna - (species)	Tropheops sp. 'red cheek' (species)	ephrin-a4	Tropheops sp. 'red cheek' (species)	Published - Accepted by Curator
Epithiospecifier Modifier1 (ESM1)	Nitrile content	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Zhang Z; Ober JA; Kliebenstein DJ (2006) The gene controlling the quantitative trait locus EPITHIOSPECIFIER MODIFIER1 alters glucosinolate hy[...]	GP00000277	ESM1 Q9LJG3	Physiology	Not identified	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Epithiospecifier Modifier1 (ESM1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Epithiospecifier protein (ESP)	Plant secondary metabolite (glucosinolate) Herbivore resistance	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Lambrix V; Reichelt M; Mitchell-Olds T ; et al. (2001) The Arabidopsis epithiospecifier protein promotes the hydrolysis of glucosinolates to nitriles and i[...]	GP00000278	ESP Q8RY71	Physiology Physiology	Not identified	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Epithiospecifier protein (ESP)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
ERECTA	Plant architecture Leaf architecture Transpiration	Unknown, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Masle J; Gilmore SR; Farquhar GD (2005) The ERECTA gene regulates plant transpiration efficiency in Arabidopsis. 2 Additional References El-Lithy ME; Reymond M; Stich B (2010) Relation among plant growth, carbohydrates and flowering time in the Arabidopsis Landsberg erecta x [...] Huang X; Paulo MJ; Boer M (2011) Analysis of natural allelic variation in Arabidopsis using a multiparent recombinant inbred line pop[...]	GP00000280	ERECTA Q42371	Morphology Morphology Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	ERECTA	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
ERECTA	Pathogen resistance (Cucumerina fungus)	Unknown, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Llorente F; Alonso-Blanco C; Sánchez-Rodriguez C ; et al. (2005) ERECTA receptor-like kinase and heterotrimeric G protein from Arabidopsis are required for resistanc[...]	GP00001244	ERECTA Q42371	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	ERECTA	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
ESR1	Aggression behavior	Cis-regulatory, Unknown	Zonotrichia albicollis white-throated sparrow - (species) D	Intraspecific	Linkage Mapping	Merritt JR; Grogan KE; Zinzow-Kramer WM ; et al. (2020) A supergene-linked estrogen receptor drives alternative phenotypes in a polymorphic songbird.	GP00002440	Esr1 P19785	Behavior	Increase in expression of the gene in the white-striped morph. Differential allelic expression in heterozygotes.	Zonotrichia albicollis white-throated sparrow - (species)	Zonotrichia albicollis white-throated sparrow - (species) D	ESR1	Zonotrichia albicollis white-throated sparrow - (species)	Published - Accepted by Curator
ETC2	Trichome density (leaf)	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Hilscher J; Schlötterer C; Hauser MT (2009) A single amino acid replacement in ETC2 shapes trichome patterning in natural Arabidopsis population[...]	GP00001237	ETC2 Q84RD1	Morphology	K19E	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	ETC2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
exp-1	Aggregation behavior	Cis-regulatory, Unknown	Caenorhabditis elegans (species)	Intraspecific	Linkage Mapping	Bendesky A; Pitts J; Rockman MV ; et al. (2012) Long-range regulatory polymorphisms affecting a GABA receptor constitute a quantitative trait locus [...]	GP00000300	exp-1 G5ECJ0	Behavior	unidentified; 6.2kb wide genetic interval 3' of the exp-1 gene	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	exp-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
FAD2 (BnaA.FAD2.a)	Oil composition Oil yield	Coding, Insertion N	Brassica napus rape - (species) D	Domesticated	Linkage Mapping	Yang Q; Fan C; Guo Z ; et al. (2012) Identification of FAD2 and FAD3 genes in Brassica napus genome and development of allele-specific ma[...]	GP00000302	FAD2 P46313	Physiology Physiology	4bp insertion resulting in frameshift and premature stop codon N	Brassica napus rape - (species)	Brassica napus rape - (species) D	FAD2 (BnaA.FAD2.a)	Brassica napus rape - (species)	Published - Accepted by Curator
Fads2	Fatty acid metabolism (fatty acid desaturation)	Gene Amplification, Insertion	Gasterosteus aculeatus three-spined stickleback - (species) D	Interspecific	Linkage Mapping	Ishikawa A; Kabeya N; Ikeya K ; et al. (2019) A key metabolic gene for recurrent freshwater colonization and radiation in fishes.	GP00001959	fads2 Q9DEX7	Physiology	Fads2 locus is duplicated in G. aculeatus increasing DHA intake and the propensity to invade of freshwater environments. The ancestral copy is on linkage group 19 and the derived copy is on linkage group 12.	Gasterosteus nipponicus (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	Fads2	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
FaO-methyl-transferase (FaOMT)	Fragrance (flavor)	Cis-regulatory, Unknown	Fragaria x ananassa strawberry - (species)	Domesticated	Linkage Mapping	Zorrilla-Fontanesi Y; Rambla JL; Cabeza A ; et al. (2012) Genetic analysis of strawberry fruit aroma and identification of O-methyltransferase FaOMT as the lo[...]	GP00000303	omt1 Q9M602	Physiology	Promoter variation _ there are several single nucleotide polymorphisms (SNPs); insertion/deletions (indels); and rearrangements in the promoter	Fragaria x ananassa strawberry - (species)	Fragaria x ananassa strawberry - (species)	FaO-methyl-transferase (FaOMT)	Fragaria x ananassa strawberry - (species)	Published - Accepted by Curator
FAR (pheromone gland FAR)	Pheromone production (isomeric/chirality divergence)	Coding, Unknown	Ostrinia nubilalis European corn borer - (species)	Intraspecific	Linkage Mapping	Lassance JM; Groot AT; Liénard MA ; et al. (2010) Allelic variation in a fatty-acyl reductase gene causes divergence in moth sex pheromones. 2 Additional References Lassance JM; Liénard MA; Antony B (2013) Functional consequences of sequence variation in the pheromone biosynthetic gene pgFAR for Ostrinia [...] Unbehend M; Kozak GM; Koutroumpa F (2021) bric à brac controls sex pheromone choice by male European corn borer moths.	GP00000304	pgFAR D3U9W3	Physiology	Candidate a.a. substitutions with effect validated in vitro	Ostrinia nubilalis European corn borer - (species)	Ostrinia nubilalis European corn borer - (species)	FAR (pheromone gland FAR)	Ostrinia nubilalis European corn borer - (species)	Published - Accepted by Curator
Fas2	Pupation site choice	Unknown, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Pischedda A; Shahandeh MP; Turner TL (2020) The Loci of Behavioral Evolution: Evidence That Fas2 and tilB Underlie Differences in Pupation Site [...]	GP00002345	Fas2 P34082	Behavior	Gene identified via deficiency mapping. RNAi in D. melanogaster leads to pupae pupating closer to the food.	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	Fas2	Drosophila simulans (species)	Published - Accepted by Curator
fasciated	Fruit size Fruit architecture	Cis-regulatory, Unknown	Solanum lycopersicum tomato - (species)	Domesticated	Linkage Mapping	Cong B; Barrero LS; Tanksley SD (2008) Regulatory change in YABBY-like transcription factor led to evolution of extreme fruit size during t[...]	GP00000305	fasciated B2YHV8	Morphology Morphology	Possibly 7-bp and 6- to 8-kb insertion in the first intron	Solanum pennellii (species)	Solanum lycopersicum tomato - (species)	fasciated	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
FASCIATED EAR2	Grain yield (kernel row number)	Unknown, Unknown	Zea mays (species)	Domesticated	Linkage Mapping	Bommert P; Nagasawa NS; Jackson D (2013) Quantitative variation in maize kernel row number is controlled by the FASCIATED EAR2 locus.	GP00000306	FEA2 Q940E8	Morphology	Not identified	Zea mays (species)	Zea mays (species)	FASCIATED EAR2	Zea mays (species)	Published - Accepted by Curator
fatty acyl-CoA reductase FAR2-B	Pheromone production (cuticular hydrocarbons)	Unknown, Unknown	Drosophila serrata (species)	Intraspecific	Linkage Mapping	Rusuwa BB; Chung H; Allen SL ; et al. (2022) Natural variation at a single gene generates sexual antagonism across fitness components in Drosophi[...]	GP00002395	Dmel\CG17560 Q9VES6	Physiology	Both alleles of DsFAR2-B appear to be functional. The distinction between the two alleles iss a large number of non-synonymous substitutions.	Drosophila serrata (species)	Drosophila serrata (species)	fatty acyl-CoA reductase FAR2-B	Drosophila serrata (species)	Published - Accepted by Curator
FGF3; FGF4; FGF19; ORAOV1	Coloration (coat; dog Ridgeback phenotype)	Gene Amplification, Complex Change	Canis lupus familiaris dog - (subspecies) D	Domesticated	Linkage Mapping	Salmon Hillbertz NH; Isaksson M; Karlsson EK ; et al. (2007) Duplication of FGF3, FGF4, FGF19 and ORAOV1 causes hair ridge and predisposition to dermoid sinus in[...]	GP00000308	FGF4 J9P3I7	Morphology	Gene duplication	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	FGF3; FGF4; FGF19; ORAOV1	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
FGFR3	Body size (bone length)	Coding, SNP	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Beever JE; Smit MA; Meyers SN ; et al. (2006) A single-base change in the tyrosine kinase II domain of ovine FGFR3 causes hereditary chondrodyspla[...] 1 Additional References Smith LB; Dally MR; Sainz RD (2006) Enhanced skeletal growth of sheep heterozygous for an inactivated fibroblast growth factor receptor [...]	GP00002184	FGFR3 P22607	Morphology	c.1719T>A p.V700E	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	FGFR3	Ovis aries sheep - (species)	Published - Accepted by Curator
Fidgetin-like1 (Fignl1)	Testis size (testis weight ; spermatogenesis)	Unknown, Unknown	Mus musculus house mouse - (species)	Interspecific	Linkage Mapping	L'Hôte D; Vatin M; Auer J ; et al. (2011) Fidgetin-like1 is a strong candidate for a dynamic impairment of male meiosis leading to reduced tes[...]	GP00001668	Fignl1 Q8BPY9	Physiology	Several non-synonymous SNPs and an alternative splicing encoding a truncated isoform that may act as a competitor of the full length protein in the degradation process	Mus spretus western wild mouse - (species)	Mus musculus house mouse - (species)	Fidgetin-like1 (Fignl1)	Mus musculus house mouse - (species)	Published - Accepted by Curator
Flavonoid 3'-5'-hydroxylase (F3'5'H)	Plant secondary metabolite (catechin)	Unknown, Unknown	Camellia sinensis (species)	Intraspecific	Linkage Mapping	Jin JQ; Ma JQ; Yao MZ ; et al. (2017) Functional natural allelic variants of flavonoid 3',5'-hydroxylase gene governing catechin traits in[...]	GP00001620	F3'5'H1 A3KLR7	Physiology	several candidate SNPs	Camellia sinensis (species)	Camellia sinensis (species)	Flavonoid 3'-5'-hydroxylase (F3'5'H)	Camellia sinensis (species)	Published - Accepted by Curator
flavonoid 3'-hydroxylase (F3'H)	Coloration (seed; pods)	Coding, Deletion N	Glycine max soybean - (species) D	Domesticated	Linkage Mapping	Toda K; Yang D; Yamanaka N ; et al. (2002) A single-base deletion in soybean flavonoid 3'-hydroxylase gene is associated with gray pubescence c[...] 1 Additional References Zabala G; Vodkin L (2003) Cloning of the pleiotropic T locus in soybean and two recessive alleles that differentially affect s[...]	GP00000321	CYP75B1 Q9SD85	Morphology	1bp deletion resulting in frameshift N	Glycine max soybean - (species)	Glycine max soybean - (species) D	flavonoid 3'-hydroxylase (F3'H)	Glycine max soybean - (species)	Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)	Coloration (flowers)	Coding, SNP	Glycine soja (species)	Intraspecific	Linkage Mapping	Takahashi R; Dubouzet JG; Matsumura H ; et al. (2010) A new allele of flower color gene W1 encoding flavonoid 3'5'-hydroxylase is responsible for light pu[...]	GP00000323	CYP75A2 P37120	Morphology	V210M (uncertain); no expression level differences detected	Glycine soja (species)	Glycine soja (species)	flavonoid 3';5'-hydroxylase (F3'5'H)	Glycine soja (species)	Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)	Coloration (flowers)	Gene Loss, Complex Change N	Iochroma cyaneum (species)	Interspecific	Linkage Mapping	Smith SD; Rausher MD (2011) Gene loss and parallel evolution contribute to species difference in flower color.	GP00000324	CYP75A2 P37120	Morphology	Large deletion N	Iochroma cyaneum (species)	Iochroma cyaneum (species)	flavonoid 3';5'-hydroxylase (F3'5'H)	Iochroma cyaneum (species)	Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)	Coloration (flowers)	Cis-regulatory, Unknown	Phlox drummondii (species)	Intraspecific	Linkage Mapping	Hopkins R; Rausher MD (2011) Identification of two genes causing reinforcement in the Texas wildflower Phlox drummondii.	GP00000325	CYP75A2 P37120	Morphology	unknown	Phlox drummondii (species)	Phlox drummondii (species)	flavonoid 3';5'-hydroxylase (F3'5'H)	Phlox drummondii (species)	Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)	Coloration (flowers)	Coding, Deletion N	Pisum sativum pea - (species) D	Domesticated	Linkage Mapping	Moreau C; Ambrose MJ; Turner L ; et al. (2012) The B gene of pea encodes a defective flavonoid 3',5'-hydroxylase, and confers pink flower color.	GP00000327	CYP75A2 P37120	Morphology	23bp deletion reuslting in frameshift and truncated protein N	Pisum sativum pea - (species)	Pisum sativum pea - (species) D	flavonoid 3';5'-hydroxylase (F3'5'H)	Pisum sativum pea - (species)	Published - Accepted by Curator
flavonoid 3';5'-hydroxylase (F3'5'H)	Coloration (tuber skin)	Cis-regulatory, Unknown	Solanum tuberosum potato - (species)	Domesticated	Linkage Mapping	Jung CS; Griffiths HM; De Jong DM ; et al. (2005) The potato P locus codes for flavonoid 3',5'-hydroxylase.	GP00000328	CYP75A2 P37120	Morphology	unknown	Solanum tuberosum potato - (species)	Solanum tuberosum potato - (species)	flavonoid 3';5'-hydroxylase (F3'5'H)	Solanum tuberosum potato - (species)	Published - Accepted by Curator
FLC (Flowering Locus C)	Flowering time	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Werner JD; Borevitz JO; Uhlenhaut NH ; et al. (2005) FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions. 1 Additional References Ågren J; Oakley CG; Lundemo S (2017) Adaptive divergence in flowering time among natural populations of Arabidopsis thaliana: Estimates o[...]	GP00000330	FLC Q9S7Q7	Physiology	Substitution creating premature Stop (codon 158) N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FLC (Flowering Locus C)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FLC (Flowering Locus C)	Flowering time	2 Mutations: Cis-regulatory SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Coustham V; Li P; Strange A ; et al. (2012) Quantitative modulation of polycomb silencing underlies natural variation in vernalization. 1 Additional References Ågren J; Oakley CG; Lundemo S (2017) Adaptive divergence in flowering time among natural populations of Arabidopsis thaliana: Estimates o[...]	GP00000331	FLC Q9S7Q7	Physiology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FLC (Flowering Locus C)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FLC (Flowering Locus C)	Flowering time	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Werner JD; Borevitz JO; Uhlenhaut NH ; et al. (2005) FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions. 1 Additional References Ågren J; Oakley CG; Lundemo S (2017) Adaptive divergence in flowering time among natural populations of Arabidopsis thaliana: Estimates o[...]	GP00000334	FLC Q9S7Q7	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FLC (Flowering Locus C)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FLC (Flowering Locus C)	Flowering time	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Werner JD; Borevitz JO; Uhlenhaut NH ; et al. (2005) FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions. 1 Additional References Ågren J; Oakley CG; Lundemo S (2017) Adaptive divergence in flowering time among natural populations of Arabidopsis thaliana: Estimates o[...]	GP00000335	FLC Q9S7Q7	Physiology	GA substitution disrupting Splice Site	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FLC (Flowering Locus C)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FLC (Flowering Locus C)	Flowering time	Cis-regulatory, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Sánchez-Bermejo E; Méndez-Vigo B; Picó FX ; et al. (2012) Novel natural alleles at FLC and LVR loci account for enhanced vernalization responses in Arabidopsi[...] 1 Additional References Ågren J; Oakley CG; Lundemo S (2017) Adaptive divergence in flowering time among natural populations of Arabidopsis thaliana: Estimates o[...]	GP00000336	FLC Q9S7Q7	Physiology	50bp deletion in 5'UTR	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	FLC (Flowering Locus C)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FLC (Flowering Locus C)	Flowering time	Coding, SNP	Capsella rubella (species)	Intraspecific	Linkage Mapping	Guo YL; Todesco M; Hagmann J ; et al. (2012) Independent FLC mutations as causes of flowering-time variation in Arabidopsis thaliana and Capsella[...]	GP00000337	FLC Q9S7Q7	Physiology	Splice site mutation introducing frameshift; removing the last 35 of 198 amino acids	Capsella rubella (species)	Capsella rubella (species)	FLC (Flowering Locus C)	Capsella rubella (species)	Published - Accepted by Curator
FLC-1	Flowering time	Coding, SNP	Brassica rapa field mustard - (species)	Domesticated	Linkage Mapping	Yuan YX; Wu J; Sun RF ; et al. (2009) A naturally occurring splicing site mutation in the Brassica rapa FLC1 gene is associated with varia[...]	GP00000338	FLC Q9S7Q7	Physiology	GA substitution disrupting Splice Site	Brassica rapa field mustard - (species)	Brassica rapa field mustard - (species)	FLC-1	Brassica rapa field mustard - (species)	Published - Accepted by Curator
FLC-2	Flowering time	Coding, Deletion N	Brassica oleracea wild cabbage - (species) D	Domesticated	Linkage Mapping	Okazaki K; Sakamoto K; Kikuchi R ; et al. (2007) Mapping and characterization of FLC homologs and QTL analysis of flowering time in Brassica oleracea[...]	GP00000339	FLC Q9S7Q7	Physiology	1bp deletion resulting in frameshift N	Brassica oleracea wild cabbage - (species)	Brassica oleracea wild cabbage - (species) D	FLC-2	Brassica oleracea wild cabbage - (species)	Published - Accepted by Curator
FLC-2	Flowering time	Cis-regulatory, Unknown	Brassica rapa field mustard - (species)	Domesticated	Linkage Mapping	Zhao J; Kulkarni V; Liu N ; et al. (2010) BrFLC2 (FLOWERING LOCUS C) as a candidate gene for a vernalization response QTL in Brassica rapa.	GP00000340	FLC Q9S7Q7	Physiology	unknown	Brassica rapa field mustard - (species)	Brassica rapa field mustard - (species)	FLC-2	Brassica rapa field mustard - (species)	Published - Accepted by Curator
FLM (MAF1)	Flowering time	Gene Loss, Complex Change N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Werner JD; Borevitz JO; Warthmann N ; et al. (2005) Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for[...]	GP00000341	AGL27 Q9AT76	Physiology	Deletion of entire gene N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FLM (MAF1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Flowering locus T (=HvFT=VRN3)	Flowering time	Cis-regulatory, Unknown	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Yan L; Fu D; Li C ; et al. (2006) The wheat and barley vernalization gene VRN3 is an orthologue of FT.	GP00000343	FT Q9SXZ2	Physiology	Regulatory variation in first intron	Hordeum vulgare (species)	Hordeum vulgare (species)	Flowering locus T (=HvFT=VRN3)	Hordeum vulgare (species)	Published - Accepted by Curator
Flowering locus T (=TaFT=VRN3)	Flowering time	Cis-regulatory, Insertion	Triticum aestivum bread wheat - (species) D	Domesticated	Linkage Mapping	Yan L; Fu D; Li C ; et al. (2006) The wheat and barley vernalization gene VRN3 is an orthologue of FT.	GP00000344	FT Q9SXZ2	Physiology	Retrotranspostion in promoter region	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species) D	Flowering locus T (=TaFT=VRN3)	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
Flowering locus T (FT)	Flowering time	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Domesticated	Linkage Mapping	Kojima S; Takahashi Y; Kobayashi Y ; et al. (2002) Hd3a, a rice ortholog of the Arabidopsis FT gene, promotes transition to flowering downstream of Hd1[...] 1 Additional References Schwartz C; Balasubramanian S; Warthmann N (2009) Cis-regulatory changes at FLOWERING LOCUS T mediate natural variation in flowering responses of Arab[...]	GP00000345	FT Q9SXZ2	Physiology	Promoter region	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Flowering locus T (FT)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Flowering locus T (FT1)	Flowering time	Coding, Deletion N	Helianthus annuus common sunflower - (species) D	Domesticated	Linkage Mapping	Blackman BK; Strasburg JL; Raduski AR ; et al. (2010) The role of recently derived FT paralogs in sunflower domestication.	GP00000346	FT Q9SXZ2	Physiology	1bp deletion; frameshift N	Helianthus annuus common sunflower - (species)	Helianthus annuus common sunflower - (species) D	Flowering locus T (FT1)	Helianthus annuus common sunflower - (species)	Published - Accepted by Curator
follistatin	Limb morphology (wing dimorphism) Flight behavior (wing dimorphism)	Gene Amplification, Insertion	Acyrthosiphon pisum pea aphid - (species) D	Intraspecific	Linkage Mapping	Li B; Bickel RD; Parker BJ ; et al. (2020) A large genomic insertion containing a duplicated follistatin gene is linked to the pea aphid male w[...]	GP00002138	Fs Q86NV3	Morphology Behavior	the api allele from winged males is a 120kb insertion that includes a copy of the follistatin gene	Acyrthosiphon pisum pea aphid - (species)	Acyrthosiphon pisum pea aphid - (species) D	follistatin	Acyrthosiphon pisum pea aphid - (species)	Published - Accepted by Curator	February 9, 2021 22:00
foraging	Food-search behavior	Cis-regulatory, SNP	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Osborne KA; Robichon A; Burgess E ; et al. (1997) Natural behavior polymorphism due to a cGMP-dependent protein kinase of Drosophila. 2 Additional References Mery F; Belay AT; So AK (2007) Natural polymorphism affecting learning and memory in Drosophila. Anreiter I; Kramer JM; Sokolowski MB (2017) Epigenetic mechanisms modulate differences in Drosophila foraging behavior.	GP00000350	for Q03043	Behavior	The fors (sitter) and forR (rover) alleles differ in a SNP that lies within a predicted Mad protein-binding site in a region upstream of the pr4 transcription start site. The SNP is a C in fors and an A in forR (the latter is predicted to reduce Mad protein binding).	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	foraging	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
FOXL2	Horns absence Somatic sex change	Cis-regulatory, Deletion	Capra hircus goat - (species) D	Domesticated	Linkage Mapping	Pailhoux E; Vigier B; Chaffaux S ; et al. (2001) A 11.7-kb deletion triggers intersexuality and polledness in goats. 2 Additional References Kocer A; Pinheiro I; Pannetier M (2008) R-spondin1 and FOXL2 act into two distinct cellular types during goat ovarian differentiation. Boulanger L; Pannetier M; Gall L (2014) FOXL2 is a female sex-determining gene in the goat.	GP00000352	FOXL2 Q8MIP2	Morphology Physiology	11.7 kbp deletion of mainly repetitive sequences ; Alters transcription of two flanking genes; but FOXL2 in particular is proposed as the main determinant of the phenotype	Capra hircus goat - (species)	Capra hircus goat - (species) D	FOXL2	Capra hircus goat - (species)	Published - Accepted by Curator
FPN2	Metal tolerance	Coding, Insertion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Morrissey J; Baxter IR; Lee J ; et al. (2009) The ferroportin metal efflux proteins function in iron and cobalt homeostasis in Arabidopsis.	GP00000354	IREG2 F4KGN5	Physiology	1bp insertion resulting in frameshift N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	FPN2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FRD3 (FERRIC REDUCTASE DEFECTIVE3)	Metal tolerance	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Pineau C; Loubet S; Lefoulon C ; et al. (2012) Natural variation at the FRD3 MATE transporter locus reveals cross-talk between Fe homeostasis and Z[...]	GP00000355	DTX43 Q9SFB0	Physiology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FRD3 (FERRIC REDUCTASE DEFECTIVE3)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Frigida (BnaA.FRI.a)	Flowering time	Unknown, Unknown	Brassica napus rape - (species)	Domesticated	Linkage Mapping	Wang N; Qian W; Suppanz I ; et al. (2011) Flowering time variation in oilseed rape (Brassica napus L.) is associated with allelic variation in[...]	GP00000356	FRI P0DH90	Physiology	unknown	Brassica napus rape - (species)	Brassica napus rape - (species)	Frigida (BnaA.FRI.a)	Brassica napus rape - (species)	Published - Accepted by Curator
Frigida (FRI)	Flowering time	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Johanson U; West J; Lister C ; et al. (2000) Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering tim[...]	GP00000357	FRI P0DH90	Physiology	16bp deletion aa313-318 in exon 2 and premature stop codon N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Frigida (FRI)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Frigida (FRI)	Flowering time	Coding, Indel N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Johanson U; West J; Lister C ; et al. (2000) Molecular analysis of FRIGIDA, a major determinant of natural variation in Arabidopsis flowering tim[...] 1 Additional References Shindo C; Aranzana MJ; Lister C (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis.	GP00000358	FRI P0DH90	Physiology	376 bp deletion and 31 bp insertion that delete amino acid 1-15 and at best produce a 45-aa protein N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Frigida (FRI)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Frigida (FRI)	Flowering time Water use efficiency	Cis-regulatory, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Lovell JT; Juenger TE; Michaels SD ; et al. (2013) Pleiotropy of FRIGIDA enhances the potential for multivariate adaptation.	GP00000375	FRI P0DH90	Physiology Physiology	376 bp deletion within the promoter of the TSU-1 FRI allele	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Frigida (FRI)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Frigida like 1 (FRL1)	Flowering time	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Schläppi MR (2006) FRIGIDA LIKE 2 is a functional allele in Landsberg erecta and compensates for a nonsense allele of F[...]	GP00000376	FRL1 Q9FFF1	Physiology	E279* in the middle of the conceptual protein sequence N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Frigida like 1 (FRL1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Frigida like 2 (FRL2)	Flowering time	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Schläppi MR (2006) FRIGIDA LIKE 2 is a functional allele in Landsberg erecta and compensates for a nonsense allele of F[...]	GP00000377	FRL2 Q9C6S2	Physiology	A132P and/or L401Q	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Frigida like 2 (FRL2)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FUMARASE 2	Plant metabolism (fumarate/malate ratio) Plant growth (bio-mass production)	Cis-regulatory, Indel	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Riewe D; Jeon HJ; Lisec J ; et al. (2016) A naturally occurring promoter polymorphism of the Arabidopsis FUM2 gene causes expression variation[...] 1 Additional References Lisec J; Meyer RC; Steinfath M (2008) Identification of metabolic and biomass QTL in Arabidopsis thaliana in a parallel analysis of RIL an[...]	GP00001286	FUM2 Q9FI53	Physiology Physiology	2068 bp in promotor region @position -395. AND 3833bp in promotor region @position -1107	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	FUMARASE 2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
FW2.2	Fruit size	Cis-regulatory, Unknown	Solanum lycopersicum tomato - (species)	Domesticated	Linkage Mapping	Frary A; Nesbitt TC; Grandillo S ; et al. (2000) fw2.2: a quantitative trait locus key to the evolution of tomato fruit size. 1 Additional References Nesbitt TC; Tanksley SD (2002) Comparative sequencing in the genus Lycopersicon. Implications for the evolution of fruit size in th[...]	GP00000383	ORFX Q9LKV7	Morphology	Not identified	Lycopersicon (subgenus)	Solanum lycopersicum tomato - (species)	FW2.2	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
G protein-coupled receptor rhodopsin	Diapause	Unknown, Unknown	Daphnia magna (species)	Intraspecific	Linkage Mapping	Roulin AC; Bourgeois Y; Stiefel U ; et al. (2016) A Photoreceptor Contributes to the Natural Variation of Diapause Induction in Daphnia magna.	GP00001539	RHO P08100	Physiology	unknown	Daphnia magna (species)	Daphnia magna (species)	G protein-coupled receptor rhodopsin	Daphnia magna (species)	Published - Accepted by Curator
GCNF (NR6A1)	Vertebrae number	Coding, SNP	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Mikawa S; Morozumi T; Shimanuki S ; et al. (2007) Fine mapping of a swine quantitative trait locus for number of vertebrae and analysis of an orphan n[...]	GP00000386	Nr6a1 Q64249	Morphology	Pro192Leu	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	GCNF (NR6A1)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
GDF6	Dermal bone size (armor plates)	Cis-regulatory, Unknown	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Indjeian VB; Kingman GA; Jones FC ; et al. (2016) Evolving New Skeletal Traits by cis-Regulatory Changes in Bone Morphogenetic Proteins.	GP00000388	GDF6 Q6KF10	Morphology	gain of a flank enhancer activity involving a complex repeat region; 1.2kb L2 LINE insertion; 18 small indels and 89 SNPs - the LINE insertion is required but not sufficient, to produce increased flank expression	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	GDF6	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
GDF7	Feathers (loss)	Cis-regulatory, Insertion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Mou C; Pitel F; Gourichon D ; et al. (2011) Cryptic patterning of avian skin confers a developmental facility for loss of neck feathering.	GP00002185	Gdf7 P43029	Morphology	a large insertion approximately 260kb downstream from the BMP12 gene (now known as GFD7) increasing the expression of this gene in embryonic skin	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	GDF7	Gallus gallus chicken - (species)	Published - Accepted by Curator
GDF9	Fertility (increased ovulation rate)	Coding, SNP	Ovis aries sheep - (species)	Domesticated	Linkage Mapping	Nicol L; Bishop SC; Pong-Wong R ; et al. (2009) Homozygosity for a single base-pair mutation in the oocyte-specific GDF9 gene results in sterility i[...]	GP00000391	GDF9 O60383	Physiology	g.41841117A>C c.1279A>C p.S427R	Ovis aries sheep - (species)	Ovis aries sheep - (species)	GDF9	Ovis aries sheep - (species)	Published - Accepted by Curator
GDF9	Fertility (increased ovulation rate)	Coding, SNP	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Våge DI; Husdal M; Kent MP ; et al. (2013) A missense mutation in growth differentiation factor 9 (GDF9) is strongly associated with litter siz[...] 1 Additional References Mullen MP; Hanrahan JP (2014) Direct evidence on the contribution of a missense mutation in GDF9 to variation in ovulation rate of[...]	GP00002186	GDF9 O60383	Physiology	g.41841285G>A c.1111G>A p.V371M	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	GDF9	Ovis aries sheep - (species)	Published - Accepted by Curator
GDF9	Fertility (increased ovulation rate)	Coding, SNP	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Hanrahan JP; Gregan SM; Mulsant P ; et al. (2004) Mutations in the genes for oocyte-derived growth factors GDF9 and BMP15 are associated with both inc[...]	GP00002187	GDF9 O60383	Physiology	g.41841212C>T c.1184C>T p.S395F	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	GDF9	Ovis aries sheep - (species)	Published - Accepted by Curator
Ge-1	Pathogen resistance (sigma virus)	Coding, Deletion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Cao C; Magwire MM; Bayer F ; et al. (2016) A Polymorphism in the Processing Body Component Ge-1 Controls Resistance to a Naturally Occurring Rh[...]	GP00001993	Ge-1 Q9VKK1	Physiology	78bp deletion ( 2L:11097925 ..11098002 in both Release 5 and Release 6 coordinates) in the fifth exon of Ge-1 which reduces the length of the serine-rich linker region by 26 amino acid residues	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Ge-1	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
gfzf	Hybrid incompatibility (F1 male lethality)	Unknown, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Phadnis N; Baker EP; Cooper JC ; et al. (2015) An essential cell cycle regulation gene causes hybrid inviability in Drosophila.	GP00000392	gfzf Q6NP69	Physiology	unknown	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	gfzf	Drosophila simulans (species)	Published - Accepted by Curator
Ghd7	Flowering time Inflorescence morphology	Unknown, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Xue W; Xing Y; Weng X ; et al. (2008) Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice.	GP00000393	GHD7 E5RQA1	Physiology Morphology	unknown	Oryza sativa rice - (species)	Oryza sativa rice - (species)	Ghd7	Oryza sativa rice - (species)	Published - Accepted by Curator
GIBBERELLIC ACID REQUIRING 1 (GA1)	Flower morphology	Unknown, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Brock MT; Kover PX; Weinig C (2012) Natural variation in GA1 associates with floral morphology in Arabidopsis thaliana.	GP00000395	GA1 Q38802	Morphology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	GIBBERELLIC ACID REQUIRING 1 (GA1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
GIGANTEA	Photoperiod response Circadian rhythm	Coding, SNP	Brassica rapa field mustard - (species)	Domesticated	Linkage Mapping	Xie Q; Lou P; Hermand V ; et al. (2015) Allelic polymorphism of GIGANTEA is responsible for naturally occurring variation in circadian perio[...]	GP00000396	GI Q9SQI2	Physiology Physiology	Ser264Ala	Brassica rapa field mustard - (species)	Brassica rapa field mustard - (species)	GIGANTEA	Brassica rapa field mustard - (species)	Published - Accepted by Curator
GL3.1	Grain size	2 Mutations: Coding SNP	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Qi P; Lin YS; Song XJ ; et al. (2012) The novel quantitative trait locus GL3.1 controls rice grain size and yield by regulating Cyclin-T1;[...]	GP00000397	GL3 Q9FN69	Morphology	2 mutations	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GL3.1	Oryza sativa rice - (species)	Published - Accepted by Curator
GL7	Grain size Grain quality	Gene Amplification, Indel	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Wang Y; Xiong G; Hu J ; et al. (2015) Copy number variation at the GL7 locus contributes to grain size diversity in rice.	GP00001541	LNG1 Q9LF24	Morphology Physiology	tandem duplication of a 17.1 kb segment containing GL7. Both copies encode exactly the same polypeptide and exhibit similar transcript levels leading to upregulation	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GL7	Oryza sativa rice - (species)	Published - Accepted by Curator
glb-5	CO2 avoidance Aggregation behavior	Coding, Indel N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	McGrath PT; Rockman MV; Zimmer M ; et al. (2009) Quantitative mapping of a digenic behavioral trait implicates globin variation in C. elegans sensory[...] 2 Additional References Bendesky A; Pitts J; Rockman MV (2012) Long-range regulatory polymorphisms affecting a GABA receptor constitute a quantitative trait locus [...] Persson A; Gross E; Laurent P (2009) Natural variation in a neural globin tunes oxygen sensing in wild Caenorhabditis elegans.	GP00000399	glb-5 A3RMS5	Behavior Behavior	765bp insertion/duplication resulting in a truncation of the last 179 amino acids of the protein and the inclusion of 40 different residues N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	glb-5	Caenorhabditis elegans (species)	Published - Accepted by Curator
GLC-1	Xenobiotic resistance (antihelmintics)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	Ghosh R; Andersen EC; Shapiro JA ; et al. (2012) Natural variation in a chloride channel subunit confers avermectin resistance in C. elegans.	GP00000400	glc-1 G5EBR3	Physiology	4aa deletion N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	GLC-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
GLO(T)	Flower morphology (anther elevation)	Coding, Insertion N	Primula vulgaris (species) D	Intraspecific	Linkage Mapping	Li J; Cocker JM; Wright J ; et al. (2016) Genetic architecture and evolution of the S locus supergene in Primula vulgaris.	GP00001393	GLO Q03378	Morphology	A 2.5 kb retrotransposon in exon 2 severely truncates the protein N	Primula vulgaris (species)	Primula vulgaris (species) D	GLO(T)	Primula vulgaris (species)	Published - Accepted by Curator
glycerol-3-phosphate dehydrogenase (Gpdh)	Enzymatic activity	Cis-regulatory, Unknown	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Bewley Glenn C (1981 ) Genetic control of the developmental program of L‐glycerol‐3‐phosphate dehydrogenase isozymes in Dro[...]	GP00001992	Gpdh P13706	Physiology	Exact causal mutation(s) unknown.	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	glycerol-3-phosphate dehydrogenase (Gpdh)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Glypican-3 (Gpc3)	Body size (weight)	Cis-regulatory, Unknown	Mus musculus house mouse - (species)	Domesticated	Linkage Mapping	Oliver F; Christians JK; Liu X ; et al. (2005) Regulatory variation at glypican-3 underlies a major growth QTL in mice.	GP00000407	Gpc3 Q8CFZ4	Physiology	unknown; possible 3'UTR variation	Mus musculus house mouse - (species)	Mus musculus house mouse - (species)	Glypican-3 (Gpc3)	Mus musculus house mouse - (species)	Published - Accepted by Curator
GmHs1-1 (Glyma02g43700.1)	Seed hardness Seed coat permeability	Coding, SNP	Glycine max soybean - (species) D	Domesticated	Linkage Mapping	Sun L; Miao Z; Cai C ; et al. (2015) GmHs1-1, encoding a calcineurin-like protein, controls hard-seededness in soybean.	GP00001543	Hs1 I1JIK2	Physiology Physiology	C>T p.Thr>Met predicted to affect the alpha-helix of the protein	Glycine soja (species)	Glycine max soybean - (species) D	GmHs1-1 (Glyma02g43700.1)	Glycine max soybean - (species)	Published - Accepted by Curator
GPA1	Pheromone response Cell elongation	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Yvert G; Brem RB; Whittle J ; et al. (2003) Trans-acting regulatory variation in Saccharomyces cerevisiae and the role of transcription factors. 1 Additional References Nogami S; Ohya Y; Yvert G (2007) Genetic complexity and quantitative trait loci mapping of yeast morphological traits.	GP00000410	GPA1 P08539	Physiology Physiology	Ser469Ile	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	GPA1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
Gr5a	Taste sensitivity (sugar; trehalose)	Coding, SNP	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Ueno K; Ohta M; Morita H ; et al. (2001) Trehalose sensitivity in Drosophila correlates with mutations in and expression of the gustatory rec[...] 2 Additional References Tanimura Teiichi; Isono Kunio; Takamura Tsuguhiko (1982 ) Genetic dimorphism in the taste sensitivity to trehalose inDrosophila melanogaster Inomata N; Goto H; Itoh M (2004) A single-amino-acid change of the gustatory receptor gene, Gr5a, has a major effect on trehalose sen[...]	GP00001997	Gr5a Q9W497	Physiology	Nucleotide change: A5681571G - Amino acid change: T218A	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Gr5a	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
GRAIN INCOMPLETE FILLING 1	Grain weight	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Wang E; Wang J; Zhu X ; et al. (2008) Control of rice grain-filling and yield by a gene with a potential signature of domestication.	GP00000413	CIN2 Q0JDC5	Morphology	unknown	Oryza rufipogon (species)	Oryza sativa rice - (species)	GRAIN INCOMPLETE FILLING 1	Oryza sativa rice - (species)	Published - Accepted by Curator
grassy tillers1	Plant architecture (number of ears)	Cis-regulatory, Unknown	Zea mays (species)	Domesticated	Linkage Mapping	Wills DM; Whipple CJ; Takuno S ; et al. (2013) From many, one: genetic control of prolificacy during maize domestication.	GP00000414	gt1 G1AQA5	Morphology	unknown but narrow 2.7kb interval	Zea mays (species)	Zea mays (species)	grassy tillers1	Zea mays (species)	Published - Accepted by Curator
Growth Hormone Receptor	Milk yield	Coding, SNP	Bos taurus cattle - (species)	Domesticated	Linkage Mapping	Viitala S; Szyda J; Blott S ; et al. (2006) The role of the bovine growth hormone receptor and prolactin receptor genes in milk, fat and protein[...] 1 Additional References Rahmatalla SA; Müller U; Strucken EM (2011) The F279Y polymorphism of the GHR gene and its relation to milk production and somatic cell score in[...]	GP00000416	Ghr P16882	Physiology	Phe279Tyr	Bos taurus cattle - (species)	Bos taurus cattle - (species)	Growth Hormone Receptor	Bos taurus cattle - (species)	Published - Accepted by Curator
GS3	Grain size	Coding, SNP N	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Fan C; Xing Y; Mao H ; et al. (2006) GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, en[...] 1 Additional References Huang X; Wei X; Sang T (2010) Genome-wide association studies of 14 agronomic traits in rice landraces.	GP00000417	GS3 C6L686	Morphology	C55*;TGC>TGA causing a 178-aa truncation in the C-terminus of the predicted protein N	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GS3	Oryza sativa rice - (species)	Published - Accepted by Curator
GS5	Grain size	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Li Y; Fan C; Xing Y ; et al. (2011) Natural variation in GS5 plays an important role in regulating grain size and yield in rice.	GP00000418	GS5 B8AYD6	Morphology	Promoter variation	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GS5	Oryza sativa rice - (species)	Published - Accepted by Curator
GSTE1-E10 cluster	Xenobiotic resistance (drug)	Unknown, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Kislukhin G; King EG; Walters KN ; et al. (2013) The genetic architecture of methotrexate toxicity is similar in Drosophila melanogaster and humans.	GP00000419	GstE1 Q7KK90	Physiology	unknown	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	GSTE1-E10 cluster	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
GW2	Grain size	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Song XJ; Huang W; Shi M ; et al. (2007) A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase.	GP00000424	GW2 A4GWX9	Morphology	1bp deletion resulting in a premature stop codon in exon 4; the premature stop codon led to truncation of 310 amino acid residues N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	GW2	Oryza sativa rice - (species)	Published - Accepted by Curator
GW2	Grain size	Coding, Insertion N	Triticum aestivum bread wheat - (species) D	Domesticated	Linkage Mapping	Yang Z; Bai Z; Li X ; et al. (2012) SNP identification and allelic-specific PCR markers development for TaGW2, a gene linked to wheat ke[...]	GP00000425	GW2 A4GWX9	Morphology	1bp insertion resulting in premature stop codon N	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species) D	GW2	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
GW7	Grain shape Grain quality	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Wang S; Li S; Liu Q ; et al. (2015) The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and [...]	GP00001540	TON1A Q9FQ25	Morphology Physiology	18 SNPs and 9 indels observed in the promoter region and exon 1 and in particular an 11-bp deletion and 18-bp insertion near GTAC motifs which are normally binded by OsSPL16 repressor (reduced binding increasing transcription)	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GW7	Oryza sativa rice - (species)	Published - Accepted by Curator
Ha_BtR	Xenobiotic resistance (insecticide; Bt Cry1Ac toxin)	Coding, SNP N	Helicoverpa armigera cotton bollworm - (species) D	Intraspecific	Linkage Mapping	Zhao J; Jin L; Yang Y ; et al. (2010) Diverse cadherin mutations conferring resistance to Bacillus thuringiensis toxin Cry1Ac in Helicover[...] 1 Additional References Yang Y; Chen H; Wu S (2006) Identification and molecular detection of a deletion mutation responsible for a truncated cadherin o[...]	GP00000426	ABCA2 A0A0S0G7V0	Physiology	Pro53* (161T>A) N	Helicoverpa armigera cotton bollworm - (species)	Helicoverpa armigera cotton bollworm - (species) D	Ha_BtR	Helicoverpa armigera cotton bollworm - (species)	Published - Accepted by Curator
HAC1 (=ATQ1)	Xenobiotic resistance (soil contamination; arsenate)	Unknown, Complex Change	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Sánchez-Bermejo E; Castrillo G; del Llano B ; et al. (2014) Natural variation in arsenate tolerance identifies an arsenate reductase in Arabidopsis thaliana. 1 Additional References Chao DY; Chen Y; Chen J (2014) Genome-wide association mapping identifies a new arsenate reductase enzyme critical for limiting ars[...]	GP00000434	HAC1 Q9C5X9	Physiology	Coding variation and differential gene expression in roots	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	HAC1 (=ATQ1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
HAC1 (=ATQ1)	Xenobiotic resistance (soil contamination; arsenate)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Chao DY; Chen Y; Chen J ; et al. (2014) Genome-wide association mapping identifies a new arsenate reductase enzyme critical for limiting ars[...]	GP00000435	HAC1 Q9C5X9	Physiology	1bp deletion resulting in frameshift N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	HAC1 (=ATQ1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
hairy (h)	Bristle number (thorax)	Unknown, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Robin C; Lyman RF; Long AD ; et al. (2002) hairy: A quantitative trait locus for drosophila sensory bristle number.	GP00000436	h P14003	Morphology	unknown; complex promoter indel variation shows high-association	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	hairy (h)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
HAO1	Fertility (egg production) Bird head morphology (male comb)	Cis-regulatory, Unknown	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Johnsson M; Gustafson I; Rubin CJ ; et al. (2012) A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during d[...] 1 Additional References Johnsson M; Rubin CJ; Höglund A (2014) The role of pleiotropy and linkage in genes affecting a sexual ornament and bone allocation in the c[...]	GP00000437	HAO1 E1BRR7	Physiology Morphology	unknown; but intergenic QTL peak with decomposed effects on expression of BMP2 and HAO1	Gallus gallus chicken - (species)	Gallus gallus chicken - (species)	HAO1	Gallus gallus chicken - (species)	Published - Accepted by Curator
Hd1	Flowering time	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Yano M; Katayose Y; Ashikari M ; et al. (2000) Hd1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Ara[...] 1 Additional References Takahashi Y; Teshima KM; Yokoi S (2009) Variations in Hd1 proteins, Hd3a promoters, and Ehd1 expression levels contribute to diversity of fl[...]	GP00000441	HD1 Q9FDX8	Physiology	2bp deletion in the putative exon 2 N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Hd1	Oryza sativa rice - (species)	Published - Accepted by Curator
Hd6a	Flowering time	Coding, SNP N	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Takahashi Y; Shomura A; Sasaki T ; et al. (2001) Hd6, a rice quantitative trait locus involved in photoperiod sensitivity, encodes the alpha subunit [...]	GP00000442	HD6 Q9AR27	Physiology	K91*; AAG>TAG N	Oryza sativa rice - (species)	Oryza sativa rice - (species)	Hd6a	Oryza sativa rice - (species)	Published - Accepted by Curator
heavy metal atpase3 (HMA3)	Metal tolerance	2 Mutations: Coding SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Chao DY; Silva A; Baxter I ; et al. (2012) Genome-wide association studies identify heavy metal ATPase3 as the primary determinant of natural v[...]	GP00000443	HMA3 P0CW78	Physiology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	heavy metal atpase3 (HMA3)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
heavy metal atpase3 (HMA3)	Metal tolerance	Coding, Deletion N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Chao DY; Silva A; Baxter I ; et al. (2012) Genome-wide association studies identify heavy metal ATPase3 as the primary determinant of natural v[...]	GP00000444	HMA3 P0CW78	Physiology	1-bp deletion resulting in a premature stop codon resulting in hypofunctional transporter. This is a high-frequency allele; suggesting the hyper-functional alleles are only selected in Cd-rich soils N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	heavy metal atpase3 (HMA3)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
heavy metal atpase3 (HMA3)	Metal tolerance	Coding, SNP	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Ueno D; Yamaji N; Kono I ; et al. (2010) Gene limiting cadmium accumulation in rice.	GP00000445	HMA3 P0CW78	Physiology	H80R	Oryza sativa rice - (species)	Oryza sativa rice - (species)	heavy metal atpase3 (HMA3)	Oryza sativa rice - (species)	Published - Accepted by Curator
heavy metal atpase4 (HMA4)	Metal tolerance	Unknown, Unknown	Arabidopsis halleri (species) D	Interspecific	Linkage Mapping	Courbot M; Willems G; Motte P ; et al. (2007) A major quantitative trait locus for cadmium tolerance in Arabidopsis halleri colocalizes with HMA4,[...]	GP00000447	HMA4 O64474	Physiology	unknown	Arabidopsis lyrata (species)	Arabidopsis halleri (species) D	heavy metal atpase4 (HMA4)	Arabidopsis halleri (species)	Published - Accepted by Curator
heavy metal atpase4 (HMA4)	Metal tolerance	Gene Amplification, Complex Change	Arabidopsis halleri (species)	Interspecific	Linkage Mapping	Hanikenne M; Talke IN; Haydon MJ ; et al. (2008) Evolution of metal hyperaccumulation required cis-regulatory changes and triplication of HMA4. 1 Additional References Hanikenne M; Kroymann J; Trampczynska A (2013) Hard selective sweep and ectopic gene conversion in a gene cluster affording environmental adaptatio[...]	GP00000448	HMA4 O64474	Physiology	Gene duplication	Arabidopsis thaliana thale cress - (species)	Arabidopsis halleri (species)	heavy metal atpase4 (HMA4)	Arabidopsis halleri (species)	Published - Accepted by Curator
heavy metal atpase4 (HMA4)	Metal tolerance	Cis-regulatory, Unknown	Arabidopsis halleri (species)	Interspecific	Linkage Mapping	Hanikenne M; Talke IN; Haydon MJ ; et al. (2008) Evolution of metal hyperaccumulation required cis-regulatory changes and triplication of HMA4. 1 Additional References Hanikenne M; Kroymann J; Trampczynska A (2013) Hard selective sweep and ectopic gene conversion in a gene cluster affording environmental adaptatio[...]	GP00000449	HMA4 O64474	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis halleri (species)	heavy metal atpase4 (HMA4)	Arabidopsis halleri (species)	Published - Accepted by Curator
heavy metal atpase5 (HMA5)	Metal tolerance	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Kobayashi Y; Kuroda K; Kimura K ; et al. (2008) Amino acid polymorphisms in strictly conserved domains of a P-type ATPase HMA5 are involved in the m[...]	GP00000450	HMA5 Q9SH30	Physiology	P626L	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	heavy metal atpase5 (HMA5)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
heavy metal atpase5 (HMA5)	Metal tolerance	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Kobayashi Y; Kuroda K; Kimura K ; et al. (2008) Amino acid polymorphisms in strictly conserved domains of a P-type ATPase HMA5 are involved in the m[...]	GP00000451	HMA5 Q9SH30	Physiology	N923T	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	heavy metal atpase5 (HMA5)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
HECW-1	Pathogen avoidance	Coding, SNP	Caenorhabditis elegans (species)	Intraspecific	Linkage Mapping	Chang HC; Paek J; Kim DH (2011) Natural polymorphisms in C. elegans HECW-1 E3 ligase affect pathogen avoidance behaviour.	GP00000452	hecw-1 G5EEJ0	Behavior	Y322C	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	HECW-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
HECW-1	Pathogen avoidance	Coding, SNP	Caenorhabditis elegans (species)	Intraspecific	Linkage Mapping	Chang HC; Paek J; Kim DH (2011) Natural polymorphisms in C. elegans HECW-1 E3 ligase affect pathogen avoidance behaviour.	GP00000453	hecw-1 G5EEJ0	Behavior	Q325P	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	HECW-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
HM1 = HC toxin reductase (HCTR) [possible pseudo-replicate from other Maize entry]	Pathogen resistance	Coding, Insertion N	Zea mays (species) D	Domesticated	Linkage Mapping	Johal GS; Briggs SP (1992) Reductase activity encoded by the HM1 disease resistance gene in maize. 1 Additional References Multani DS; Meeley RB; Paterson AH (1998) Plant-pathogen microevolution: molecular basis for the origin of a fungal disease in maize.	GP00000481	hm1 O49163	Physiology	256-bp transposable element insertion in exon 4 N	Zea mays (species)	Zea mays (species) D	HM1 = HC toxin reductase (HCTR) [possible pseudo-replicate from other Maize entry]	Zea mays (species)	Published - Accepted by Curator
HMGA2	Ear size	Unknown, Unknown	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Li P; Xiao S; Wei N ; et al. (2012) Fine mapping of a QTL for ear size on porcine chromosome 5 and identification of high mobility group[...]	GP00000487	HMGA2 P52926	Morphology	unknown	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	HMGA2	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
Hooded	Flower morphology	Cis-regulatory, Insertion	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Müller KJ; Romano N; Gerstner O ; et al. (1995) The barley Hooded mutation caused by a duplication in a homeobox gene intron.	GP00000488	KNOX3 Q43484	Morphology	305bp duplication in intron 4	Hordeum vulgare (species)	Hordeum vulgare (species) D	Hooded	Hordeum vulgare (species)	Published - Accepted by Curator
Hoxb8	Feather (bird face)	Cis-regulatory, Insertion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Guo Y; Gu X; Sheng Z ; et al. (2016) A Complex Structural Variation on Chromosome 27 Leads to the Ectopic Expression of HOXB8 and the Muf[...]	GP00002193	Hoxb8 P09632	Morphology	Complex Structural Variation with 3 CNVs including a 14.8kb copy of hoxb7 + hoxb8 ; results in ectopic (unrepressed) expression of hoxb8 in feathers especially in the facial region	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Hoxb8	Gallus gallus chicken - (species)	Published - Accepted by Curator
HP1D2	Sex determination (sex ratio distortion)	Coding, Deletion N	Drosophila simulans (species) D	Intraspecific	Linkage Mapping	Helleu Q; Gérard PR; Dubruille R ; et al. (2016) Rapid evolution of a Y-chromosome heterochromatin protein underlies sex chromosome meiotic drive.	GP00001467	HP1D2 B4R6K0	Physiology	deletion of 371bp that removes one-half (371bp) of the HP1D2 coding sequence resulting in a frameshift that prevents the translation of the C-terminal chromo shadow domain (CSD) mediating protein N	Drosophila simulans (species)	Drosophila simulans (species) D	HP1D2	Drosophila simulans (species)	Published - Accepted by Curator
Hs1 = pro-1	Pathogen resistance (parasite, nematodes) (nematodes)	Gene Loss, Complex Change N	Beta vulgaris (species)	Domesticated	Linkage Mapping	Cai D; Kleine M; Kifle S ; et al. (1997) Positional cloning of a gene for nematode resistance in sugar beet.	GP00000490	HSPRO1 Q9LY61	Physiology	cDNA sequence lacking in genomic DNA N	Patellifolia (genus)	Beta vulgaris (species)	Hs1 = pro-1	Beta vulgaris (species)	Published - Accepted by Curator
HUA2	Flowering time Shoot morphology	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Wang Q; Sajja U; Rosloski S ; et al. (2007) HUA2 caused natural variation in shoot morphology of A. thaliana.	GP00000491	HUA2 Q9XER9	Physiology Morphology	K525E N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	HUA2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
HUA2	Flowering time Coloration (temperature-dependent)	Coding, Unknown N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Ilk N; Ding J; Ihnatowicz A ; et al. (2015) Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...] 1 Additional References Doyle MR; Bizzell CM; Keller MR (2005) HUA2 is required for the expression of floral repressors in Arabidopsis thaliana.	GP00001230	HUA2 Q9XER9	Physiology Morphology	Premature stop codon resulting in truncation of 290 C-terminal amino-acids (hua-2-5 Ler allele) N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	HUA2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Hybrid male rescue	Hybrid incompatibility (F1 male lethality)	Unknown, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Brideau NJ; Flores HA; Wang J ; et al. (2006) Two Dobzhansky-Muller genes interact to cause hybrid lethality in Drosophila.	GP00000495	Hmr Q86CW5	Physiology	Rapid coding divergence	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	Hybrid male rescue	Drosophila simulans (species)	Published - Accepted by Curator
I cluster	Pathogen resistance	Unknown, Unknown	Phaseolus vulgaris (species) D	Domesticated	Linkage Mapping	Vallejos CE; Astua-Monge G; Jones V ; et al. (2006) Genetic and molecular characterization of the I locus of Phaseolus vulgaris.	GP00000496	U5YMY7	Physiology	unknown; maps to a cluster of R-proteins	Phaseolus vulgaris (species)	Phaseolus vulgaris (species) D	I cluster	Phaseolus vulgaris (species)	Published - Accepted by Curator
ICARUS1	Plant growth (leaf morphology ; temperature-dependent) Hypersensitive to DNA damage	2 Mutations: Coding N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Zhu W; Ausin I; Seleznev A ; et al. (2015) Natural Variation Identifies ICARUS1, a Universal Gene Required for Cell Proliferation and Growth at[...]	GP00002066	ICA1 A0A0F7PXK5	Physiology Physiology	2 mutations	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	ICARUS1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
IGF2BP1	Body size (weight)	Cis-regulatory, Unknown	Anas platyrhynchos mallard - (species) D	Domesticated	Linkage Mapping	Zhou Z; Li M; Cheng H ; et al. (2018) An intercross population study reveals genes associated with body size and plumage color in ducks.	GP00002128	IGF2BP1 O42254	Morphology	We found that the phenotypic values of body size related traits together with IGF2BP1 expression levels were successfully fine-mapped of the causal variation in an ~100-kb region (chr28: 4,413,785-4,513,671) located on the 148 kb upstream of the IGF2BP1 gene	Anas platyrhynchos mallard - (species)	Anas platyrhynchos mallard - (species) D	IGF2BP1	Anas platyrhynchos mallard - (species)	Published - Accepted by Curator
IIL1	Plant growth (pleiotropic growth abnormalities)	Cis-regulatory, Insertion	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Sureshkumar S; Todesco M; Schneeberger K ; et al. (2009) A genetic defect caused by a triplet repeat expansion in Arabidopsis thaliana. 1 Additional References Tabib A; Vishwanathan S; Seleznev A (2016) A Polynucleotide Repeat Expansion Causing Temperature-Sensitivity Persists in Wild Irish Accessions [...]	GP00001229	IIL1 Q94AR8	Morphology	expansion of a GAA/TTC trinucleotide repeat in the third intron	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	IIL1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
IL4	Immune response	Cis-regulatory, SNP	Homo sapiens human - (species)	Intraspecific	Linkage Mapping	Rockman MV; Hahn MW; Soranzo N ; et al. (2003) Positive selection on a human-specific transcription factor binding site regulating IL4 expression.	GP00000497	IL4 P05112	Physiology	_524T promoter single base-pair substitution affecting binding of the NFAT transcription factor	Homo sapiens human - (species)	Homo sapiens human - (species)	IL4	Homo sapiens human - (species)	Published - Accepted by Curator
IME1	Sporulation efficiency	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Intraspecific	Linkage Mapping	Gerke J; Lorenz K; Cohen B (2009) Genetic interactions between transcription factors cause natural variation in yeast.	GP00000498	IME1 P21190	Physiology	L325M and/or 1bp synonymous substitution	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	IME1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
InR	Fertility (ovariole number)	Unknown, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Green DA; Extavour CG (2012) Convergent evolution of a reproductive trait through distinct developmental mechanisms in Drosophila[...] 1 Additional References Orgogozo V; Broman KW; Stern DL (2006) High-resolution quantitative trait locus mapping reveals sign epistasis controlling ovariole number [...]	GP00000500	InR P09208	Physiology	unknown; loss of function reduces ovariole number	Drosophila sechellia (species)	Drosophila simulans (species)	InR	Drosophila simulans (species)	Published - Accepted by Curator
Insulin-like growth factor 2 (IGF2)	Muscular mass Fat deposition Heart size	Cis-regulatory, SNP	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Van Laere AS; Nguyen M; Braunschweig M ; et al. (2003) A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig.	GP00000502	Igf2 P09535	Morphology Physiology Morphology	1bp change	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	Insulin-like growth factor 2 (IGF2)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
IRA2	Growth rate (environment-dependent)	Coding, Unknown	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Smith EN; Kruglyak L (2008) Gene-environment interaction in yeast gene expression.	GP00000505	IRA2 P19158	Physiology	unknown	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	IRA2	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
IRF2BP2	Hair type (woolly)	Cis-regulatory, Insertion	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Demars J; Cano M; Drouilhet L ; et al. (2017) Genome-Wide Identification of the Mutation Underlying Fleece Variation and Discriminating Ancestral [...]	GP00002195	IRF2BP2 Q7Z5L9	Morphology	insertion of an antisense EIF2S2 retrogene (asEIF2S2) into the 3′ UTR of the IRF2BP2 gene ; RNA-RNA hybrid creates a long endogenous double-stranded RNA which alters the expression of both EIF2S2 and IRF2BP2 mRNA	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	IRF2BP2	Ovis aries sheep - (species)	Published - Accepted by Curator
JYalpha	Hybrid incompatibility (F2 male sterility)	Unknown, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Masly JP; Jones CD; Noor MA ; et al. (2006) Gene transposition as a cause of hybrid sterility in Drosophila.	GP00000508	JYalpha A8QI34	Physiology	Gene transposition	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	JYalpha	Drosophila simulans (species)	Published - Accepted by Curator
KCS18	Oil composition	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Jasinski S; Lécureuil A; Miquel M ; et al. (2012) Natural variation in seed very long chain fatty acid content is controlled by a new isoform of KCS18[...]	GP00000512	FAE1 Q38860	Physiology	L407V N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	KCS18	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	Gene Amplification, Complex Change	Bos taurus cattle - (species)	Domesticated	Linkage Mapping	Durkin K; Coppieters W; Drögemüller C ; et al. (2012) Serial translocation by means of circular intermediates underlies colour sidedness in cattle.	GP00000514	Kit P05532	Morphology	Copy Number Variation of <600kb segments encompassing KIT	Bos taurus cattle - (species)	Bos taurus cattle - (species)	Kit (type III receptor protein-tyrosine kinase)	Bos taurus cattle - (species)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	Coding, SNP	Equus caballus horse - (species) D	Domesticated	Linkage Mapping	Brooks SA; Bailey E (2005) Exon skipping in the KIT gene causes a Sabino spotting pattern in horses.	GP00000515	Kit P05532	Morphology	T->A in intron 16; leads to skipping of exon 17	Equus caballus horse - (species)	Equus caballus horse - (species) D	Kit (type III receptor protein-tyrosine kinase)	Equus caballus horse - (species)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	Coding, SNP N	Equus caballus horse - (species) D	Domesticated	Linkage Mapping	Haase B; Brooks SA; Schlumbaum A ; et al. (2007) Allelic heterogeneity at the equine KIT locus in dominant white (W) horses.	GP00000516	Kit P05532	Morphology	c.2151C>G pY717* N	Equus caballus horse - (species)	Equus caballus horse - (species) D	Kit (type III receptor protein-tyrosine kinase)	Equus caballus horse - (species)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	2 Mutations:	Sus scrofa domesticus domestic pig - (subspecies) D	Domesticated	Linkage Mapping	Marklund S; Kijas J; Rodriguez-Martinez H ; et al. (1998) Molecular basis for the dominant white phenotype in the domestic pig. 3 Additional References Rubin CJ; Megens HJ; Martinez Barrio A (2012) Strong signatures of selection in the domestic pig genome. Sun G; Liang X; Qin K (2020) Functional Analysis of KIT Gene Structural Mutations Causing the Porcine Dominant White Phenotype Us[...] Pielberg G; Day AE; Plastow GS (2003) A sensitive method for detecting variation in copy numbers of duplicated genes.	GP00000520	Kit P05532	Morphology	2 mutations	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies) D	Kit (type III receptor protein-tyrosine kinase)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	Cis-regulatory, Deletion	Vulpes vulpes red fox - (species) D	Domesticated	Linkage Mapping	Johnson JL; Kozysa A; Kharlamova AV ; et al. (2015) Platinum coat color in red fox (Vulpes vulpes) is caused by a mutation in an autosomal copy of KIT.	GP00000521	Kit P05532	Morphology	splice mutation; G to A substitution in the first nucleotide of intron 17; leads to skipping of exon 17.	Vulpes vulpes red fox - (species)	Vulpes vulpes red fox - (species) D	Kit (type III receptor protein-tyrosine kinase)	Vulpes vulpes red fox - (species)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	Cis-regulatory, Deletion	Sus scrofa domesticus domestic pig - (subspecies) D	Domesticated	Linkage Mapping	Lim HT; Zhong T; Cho IC ; et al. (2011) Novel alternative splicing by exon skipping in KIT associated with whole-body roan in an intercrosse[...] 1 Additional References Pielberg G; Day AE; Plastow GS (2003) A sensitive method for detecting variation in copy numbers of duplicated genes.	GP00002227	Kit P05532	Morphology	U(26) repeat in intron 5 of the KIT gene with a single G interruption likely to mediate skipping of exon 5 of the gene in some tissues including skin ; the WT allele has an U(27) repeat interrupted by 5 G	Sus scrofa domesticus domestic pig - (subspecies)	Sus scrofa domesticus domestic pig - (subspecies) D	Kit (type III receptor protein-tyrosine kinase)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
Kit ligand	Coloration (coat)	Coding, SNP N	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Seitz JJ; Schmutz SM; Thue TD ; et al. (1999) A missense mutation in the bovine MGF gene is associated with the roan phenotype in Belgian Blue and[...] 1 Additional References Aasland M; Klungland H; Lien S (2000) Two polymorphisms in the bovine mast cell growth factor gene (MGF).	GP00000101	KITLG P21583	Morphology	Ala193Asp ; missense mutation at position 654 - according to OMIA: c.572C>A p.A191N N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Kit ligand	Bos taurus cattle - (species)	Published - Accepted by Curator
Kit ligand	Coloration (gills; ventrum)	Cis-regulatory, Unknown	Gasterosteus aculeatus three-spined stickleback - (species)	Intraspecific	Linkage Mapping	Miller CT; Beleza S; Pollen AA ; et al. (2007) cis-Regulatory changes in Kit ligand expression and parallel evolution of pigmentation in sticklebac[...]	GP00000523	KITLG P21583	Morphology	Not identified	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species)	Kit ligand	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
KRT6A	Feathers	Coding, Deletion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Ng CS; Wu P; Foley J ; et al. (2012) The chicken frizzle feather is due to an α-keratin (KRT75) mutation that causes a defective rachis.	GP00000527	Krt6a P50446	Morphology	69bp deletion partially overlapping with exon 5	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	KRT6A	Gallus gallus chicken - (species)	Published - Accepted by Curator
KRT71	Hair type (curly and hairless)	Coding, Deletion N	Rattus norvegicus Norway rat - (species) D	Domesticated	Linkage Mapping	Kuramoto T; Hirano R; Kuwamura M ; et al. (2010) Identification of the rat Rex mutation as a 7-bp deletion at splicing acceptor site of the Krt71 gen[...]	GP00001729	Krt71 Q9R0H5	Morphology	a 7-bp deletion at the splicing acceptor site of intron 1. The deletion provoked a 6-amino acid in-frame deletion (p.Val149_Gln154del) in the alpha-helical rod domain of KRT71 protein N	Rattus norvegicus Norway rat - (species)	Rattus norvegicus Norway rat - (species) D	KRT71	Rattus norvegicus Norway rat - (species)	Published - Accepted by Curator
L6	Pathogen resistance	Coding, Insertion N	Linum usitatissimum flax - (species)	Intraspecific	Linkage Mapping	Lawrence GJ; Finnegan EJ; Ayliffe MA ; et al. (1995) The L6 gene for flax rust resistance is related to the Arabidopsis bacterial resistance gene RPS2 an[...]	GP00000528	L6 Q40253	Physiology	Truncated protein due to insertion of a transposable element. Reversion to resistance among descendants of mutant X75 was associated with excision of the newly transposable element Ac. N	Linum usitatissimum flax - (species)	Linum usitatissimum flax - (species)	L6	Linum usitatissimum flax - (species)	Published - Accepted by Curator
lactase (LCT)	Lactose tolerance (adult)	Cis-regulatory, SNP	Homo sapiens human - (species)	Intraspecific	Linkage Mapping	Enattah NS; Sahi T; Savilahti E ; et al. (2002) Identification of a variant associated with adult-type hypolactasia. 1 Additional References Tishkoff SA; Reed FA; Ranciaro A (2007) Convergent adaptation of human lactase persistence in Africa and Europe.	GP00000529	LCT P09848	Physiology	C-13910T	Homo sapiens human - (species)	Homo sapiens human - (species)	lactase (LCT)	Homo sapiens human - (species)	Published - Accepted by Curator
lactate dehydrogenase-B (Ldh-B)	Stress response	Cis-regulatory, Unknown	Fundulus heteroclitus mummichog - (species)	Intraspecific	Linkage Mapping	Schulte PM; Glemet HC; Fiebig AA ; et al. (2000) Adaptive variation in lactate dehydrogenase-B gene expression: role of a stress-responsive regulator[...]	GP00000533	ldhb P20373	Physiology	unknown - candidate 1 bp change in southern populatin generates mammary tumor virus glucocorticoid responsive element	Fundulus heteroclitus mummichog - (species)	Fundulus heteroclitus mummichog - (species)	lactate dehydrogenase-B (Ldh-B)	Fundulus heteroclitus mummichog - (species)	Published - Accepted by Curator
Latexin (Lxn)	Stem cell number (hematopoietic precursors)	Cis-regulatory, Unknown	Mus musculus house mouse - (species)	Intraspecific	Linkage Mapping	Liang Y; Jansen M; Aronow B ; et al. (2007) The quantitative trait gene latexin influences the size of the hematopoietic stem cell population in[...]	GP00000534	Lxn P70202	Morphology	Not identified	Mus musculus house mouse - (species)	Mus musculus house mouse - (species)	Latexin (Lxn)	Mus musculus house mouse - (species)	Published - Accepted by Curator
lbh (limb bud and heart homolog)	Cranio-facial morphology (mandible)	Coding, SNP	Labeotropheus fuelleborni blue mbuna - (species) D	Interspecific	Linkage Mapping	Powder KE; Cousin H; McLinden GP ; et al. (2014) A nonsynonymous mutation in the transcriptional regulator lbh is associated with cichlid craniofacia[...]	GP00001387	LBH Q53QV2	Morphology	G>A p.R17Q	Maylandia zebra zebra mbuna - (species)	Labeotropheus fuelleborni blue mbuna - (species) D	lbh (limb bud and heart homolog)	Labeotropheus fuelleborni blue mbuna - (species)	Published - Accepted by Curator
LCORL	Body size	Unknown, Unknown	Bos taurus cattle - (species)	Domesticated	Linkage Mapping	Lindholm-Perry AK; Sexten AK; Kuehn LA ; et al. (2011) Association, effects and validation of polymorphisms within the NCAPG - LCORL locus located on BTA6 [...]	GP00000535	LCORL Q8N3X6	Morphology	Not identified	Bos taurus cattle - (species)	Bos taurus cattle - (species)	LCORL	Bos taurus cattle - (species)	Published - Accepted by Curator
LCORL	Body size	Unknown, Unknown	Equus caballus horse - (species)	Domesticated	Linkage Mapping	Makvandi-Nejad S; Hoffman GE; Allen JJ ; et al. (2012) Four loci explain 83% of size variation in the horse. 3 Additional References Metzger J; Schrimpf R; Philipp U (2013) Expression levels of LCORL are associated with body size in horses. Tetens J; Widmann P; Kühn C (2013) A genome-wide association study indicates LCORL/NCAPG as a candidate locus for withers height in Ger[...] Signer-Hasler H; Flury C; Haase B (2012) A genome-wide association study reveals loci influencing height and other conformation traits in hor[...]	GP00000536	LCORL Q8N3X6	Morphology	Not identified	Equus caballus horse - (species)	Equus caballus horse - (species)	LCORL	Equus caballus horse - (species)	Published - Accepted by Curator
Lectin-24A	Pathogen resistance (parasitic wasp)	Cis-regulatory, Deletion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022 ) Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite	GP00002655	lectin-24A Q9VQU4	Physiology	A cis-regulatory polymorphism in the gene Lectin-24A abolishes expression after infection and strongly reduces survival. 21bp indel (c.-171_-151del)	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Lectin-24A	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Lectin-24A	Pathogen resistance (parasitic wasp)	Coding, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022 ) Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite	GP00002656	lectin-24A Q9VQU4	Physiology	a 165bp deletion in the protein coding sequence that results in a shift in the reading frame and a premature stop codon (p.Phe217_Glu273del*) N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Lectin-24A	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Lectin-24A	Pathogen resistance (parasitic wasp)	Coding, SNP N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022 ) Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite	GP00002657		Physiology	L81 >STOP - point mutation that introduces a premature stop codon N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Lectin-24A	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Lectin-24A	Pathogen resistance (parasitic wasp)	Coding, SNP N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022 ) Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite	GP00002658	lectin-24A Q9VQU4	Physiology	Q254 >STOP - point mutation that introduces a premature stop codon N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Lectin-24A	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Lectin-24A	Pathogen resistance (parasitic wasp)	Coding, SNP N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Arunkumar Ramesh; Zhou Shuyu Olivia; Day Jonathan P ; et al. (2022 ) Recurrent loss of an immunity gene that protects Drosophila against a major natural parasite	GP00002659	lectin-24A Q9VQU4	Physiology	F217 >STOP - point mutation that introduces a premature stop codon N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Lectin-24A	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
LeSPL-CNR	Fruit ripening	Cis-regulatory, Epigenetic Change	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Manning K; Tör M; Poole M ; et al. (2006) A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibit[...]	GP00000539	101256245 Q0PY35	Physiology	Stable methylation in a 286bp region of the promoter	Solanum cheesmaniae (species)	Solanum lycopersicum tomato - (species) D	LeSPL-CNR	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
Lethal Hybrid rescue	Hybrid incompatibility (F1 male lethality)	Coding, Insertion	Drosophila simulans (species) D	Interspecific	Linkage Mapping	Brideau NJ; Flores HA; Wang J ; et al. (2006) Two Dobzhansky-Muller genes interact to cause hybrid lethality in Drosophila. 2 Additional References Nolte V; Weigel D; Schlötterer C (2008) The impact of shared ancestral variation on hybrid male lethality--a 16 codon indel in the Drosophil[...] Maheshwari S; Barbash DA (2012) An indel polymorphism in the hybrid incompatibility gene lethal hybrid rescue of Drosophila is funct[...]	GP00000540	Lhr Q95RV3	Physiology	16a.a. insertion with effect in sensitive background only (Maheshwari and Barbash 2012)	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species) D	Lethal Hybrid rescue	Drosophila simulans (species)	Published - Accepted by Curator
Lethal Hybrid rescue	Hybrid incompatibility (F1 male lethality)	Coding, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Maheshwari S; Barbash DA (2012) An indel polymorphism in the hybrid incompatibility gene lethal hybrid rescue of Drosophila is funct[...]	GP00000541	Lhr Q95RV3	Physiology	Coding divergence in a conserved stretch of 10 C-terminal amino-acids	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	Lethal Hybrid rescue	Drosophila simulans (species)	Published - Accepted by Curator
LEU2	Xenobiotic resistance	Gene Loss, Complex Change N	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Perlstein EO; Ruderfer DM; Roberts DC ; et al. (2007) Genetic basis of individual differences in the response to small-molecule drugs in yeast.	GP00000542	LEU2 P04173	Physiology	Deletion N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	LEU2	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
LIGHT AREAS1 (LAR1)	Coloration (flowers)	Cis-regulatory, Unknown	Erythranthe lewisii (species)	Interspecific	Linkage Mapping	Yuan YW; Rebocho AB; Sagawa JM ; et al. (2016) Competition between anthocyanin and flavonol biosynthesis produces spatial pattern variation of flor[...]	GP00000543	LAR1 A0A0S2T0F2	Morphology	unknown	Erythranthe lewisii (species)	Erythranthe lewisii (species)	LIGHT AREAS1 (LAR1)	Erythranthe lewisii (species)	Published - Accepted by Curator
LIMONENE-MYRCENE SYNTHASE (LMS)	Fragrance (floral terpenoid volatiles; D -limonene and beta-myrcene)	Coding, SNP N	Erythranthe cardinalis (species) D	Interspecific	Linkage Mapping	Byers KJ; Vela JP; Peng F ; et al. (2014) Floral volatile alleles can contribute to pollinator-mediated reproductive isolation in monkeyflower[...]	GP00001761	LMS W6A2K5	Physiology	G66T transversion mutation in exon 3 of McLMS (KM659024) that results in a nonsense mutation in the McLMS protein (G201X) N	Erythranthe lewisii (species)	Erythranthe cardinalis (species) D	LIMONENE-MYRCENE SYNTHASE (LMS)	Erythranthe cardinalis (species)	Published - Accepted by Curator
Linamarase	Toxicity levels (cyanogenic glucoside)	Gene Loss, Deletion N	Trifolium repens white clover - (species) D	Intraspecific	Linkage Mapping	Olsen KM; Hsu SC; Small LL (2008) Evidence on the molecular basis of the Ac/ac adaptive cyanogenesis polymorphism in white clover (Tri[...] 1 Additional References Olsen KM; Kooyers NJ; Small LL (2013) Recurrent gene deletions and the evolution of adaptive cyanogenesis polymorphisms in white clover (T[...]	GP00000549	LI P26205	Physiology	Gene deletion N	Trifolium repens white clover - (species)	Trifolium repens white clover - (species) D	Linamarase	Trifolium repens white clover - (species)	Published - Accepted by Curator
LIPH	Hair length	Coding, Deletion N	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Linkage Mapping	Diribarne M; Mata X; Chantry-Darmon C ; et al. (2011) A deletion in exon 9 of the LIPH gene is responsible for the rex hair coat phenotype in rabbits (Ory[...]	GP00000550	Liph Q8CIV3	Morphology	1bp deletion resulting in frameshift N	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	LIPH	Oryctolagus cuniculus rabbit - (species)	Published - Accepted by Curator
lncRNA:Hsr omega	Temperature tolerance	Unknown, Unknown	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	McKechnie SW; Halford MM; McColl G ; et al. (1998) Both allelic variation and expression of nuclear and cytoplasmic transcripts of Hsr-omega are closel[...] 1 Additional References McColl G; McKechnie SW (1999) The Drosophila heat shock hsr-omega gene: an allele frequency cline detected by quantitative PCR.	GP00001999		Physiology		Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	lncRNA:Hsr omega	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Lr21	Pathogen resistance	Coding, Complex Change	Triticum aestivum bread wheat - (species)	Domesticated	Linkage Mapping	Huang L; Brooks S; Li W ; et al. (2009) Evolution of new disease specificity at a simple resistance locus in a crop-weed complex: reconstitu[...]	GP00000551	C5ID17	Physiology	Novel pathogen specificity resulting from chimerism of the parental alleles after intragenic recombination	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species)	Lr21	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
Lr67	Pathogen resistance (rust ; mildew)	Coding, SNP	Triticum aestivum bread wheat - (species) D	Domesticated	Linkage Mapping	Moore JW; Herrera-Foessel S; Lan C ; et al. (2015) A recently evolved hexose transporter variant confers resistance to multiple pathogens in wheat.	GP00001535	A0A0S1LH45	Physiology	Gly144Arg (exon 2) leads to a protein incapable of glucose import; LR67res exerts a dominant-negative effect through heterodimerization with these functional transporters to reduce glucose uptake.; alterations in hexose transport in infected leaves may explain its ability to reduce the growth of multiple biotrophic pathogen species	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species) D	Lr67	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
Lysine histidine transporter 1	Pathogen resistance	Coding, Insertion N	Zea mays (species) D	Domesticated	Linkage Mapping	Zhao Y; Lu X; Liu C ; et al. (2012) Identification and fine mapping of rhm1 locus for resistance to Southern corn leaf blight in maize.	GP00000555	LHT1 Q9FKS8	Physiology	354bp insertioin resulting in premature stop codon N	Zea mays (species)	Zea mays (species) D	Lysine histidine transporter 1	Zea mays (species)	Published - Accepted by Curator
M	Pathogen resistance	Coding, Deletion	Linum usitatissimum flax - (species) D	Intraspecific	Linkage Mapping	Anderson PA; Lawrence GJ; Morrish BC ; et al. (1997) Inactivation of the flax rust resistance gene M associated with loss of a repeated unit within the l[...]	GP00000559	P93244	Physiology	426bp deletion, probably by unequal recombination	Linum usitatissimum flax - (species)	Linum usitatissimum flax - (species) D	M	Linum usitatissimum flax - (species)	Published - Accepted by Curator
mab-23	Male genitalia	Coding, SNP N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	Lints R; Emmons SW (2002) Regulation of sex-specific differentiation and mating behavior in C. elegans by a new member of the [...] 1 Additional References Hodgkin J; Doniach T (1997) Natural variation and copulatory plug formation in Caenorhabditis elegans.	GP00001323	mab-23 G5ECK3	Morphology	TGC>TTC - cysteine of the DM motif transformed into phenylalanine; so is likely to disrupt DNA-binding function N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	mab-23	Caenorhabditis elegans (species)	Published - Accepted by Curator
Mac1	Virulence	Unknown, Unknown	Cryptococcus neoformans (species)	Intraspecific	Linkage Mapping	Lin X; Huang JC; Mitchell TG ; et al. (2006) Virulence attributes and hyphal growth of C. neoformans are quantitative traits and the MATalpha all[...]	GP00000560	CGB_D8050W E6R4R6	Physiology	unknown	Cryptococcus neoformans (species)	Cryptococcus neoformans (species)	Mac1	Cryptococcus neoformans (species)	Published - Accepted by Curator
MADS AFFECTING FLOWERING 2 (MAF2)	Flowering time	Cis-regulatory, Insertion	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Rosloski SM; Jali SS; Balasubramanian S ; et al. (2010) Natural diversity in flowering responses of Arabidopsis thaliana caused by variation in a tandem gen[...]	GP00000561	MAF2 Q84J38	Physiology	Insertion alleles - several	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	MADS AFFECTING FLOWERING 2 (MAF2)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
MAM1	Glucosinolate content	Coding, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Kroymann J; Textor S; Tokuhisa JG ; et al. (2001) A gene controlling variation in Arabidopsis glucosinolate composition is part of the methionine chai[...] 3 Additional References Chan EK; Rowe HC; Kliebenstein DJ (2010) Understanding the evolution of defense metabolites in Arabidopsis thaliana using genome-wide associa[...] Chan EK; Rowe HC; Corwin JA (2011) Combining genome-wide association mapping and transcriptional networks to identify novel genes contr[...] Züst T; Heichinger C; Grossniklaus U (2012) Natural enemies drive geographic variation in plant defenses.	GP00000562	MAM1 Q9FG67	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	MAM1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
MaMyb2	Coloration (flowers)	Cis-regulatory, Unknown	Diplacus aurantiacus (species)	Intraspecific	Linkage Mapping	Streisfeld MA; Young WN; Sobel JM (2013) Divergent selection drives genetic differentiation in an R2R3-MYB transcription factor that contribu[...]	GP00000563	Myb2 M9QXG2	Morphology	unknown expression-phenotype co-vary	Diplacus aurantiacus (species)	Diplacus aurantiacus (species)	MaMyb2	Diplacus aurantiacus (species)	Published - Accepted by Curator
MAP4K4	Xenobiotic resistance (insecticide; Bt Cry1Ac toxin)	Unknown, Unknown	Plutella xylostella diamondback moth - (species) D	Intraspecific	Linkage Mapping	Guo Z; Kang S; Chen D ; et al. (2015) MAPK signaling pathway alters expression of midgut ALP and ABCC genes and causes resistance to Bacil[...]	GP00001673	MAP4K4 O95819	Physiology	MAP4K4 constitutively up-regulated leading to up-regulated PxABCC1 and down-regulated PxABCC2 and PxABCC3 and reduction of membrane-bound ALP (mALP) expression responsible for reduced Cry1Ac toxin binding to midgut proteins	Plutella xylostella diamondback moth - (species)	Plutella xylostella diamondback moth - (species) D	MAP4K4	Plutella xylostella diamondback moth - (species)	Published - Accepted by Curator
MATE1/AltSB/SbMATE	Metal tolerance	Cis-regulatory, Unknown	Sorghum bicolor sorghum - (species)	Domesticated	Linkage Mapping	Magalhaes JV; Liu J; Guimarães CT ; et al. (2007) A gene in the multidrug and toxic compound extrusion (MATE) family confers aluminum tolerance in sor[...]	GP00000565		Physiology	unknown	Sorghum bicolor sorghum - (species)	Sorghum bicolor sorghum - (species)	MATE1/AltSB/SbMATE	Sorghum bicolor sorghum - (species)	Published - Accepted by Curator
MC1R	Coloration (albinism)	Coding, Deletion N	Astyanax mexicanus Mexican tetra - (species) D	Intraspecific	Linkage Mapping	Gross JB; Borowsky R; Tabin CJ (2009) A novel role for Mc1r in the parallel evolution of depigmentation in independent populations of the [...]	GP00000567	MC1R Q01726	Morphology	2bp deletion resulting in frameshift N	Astyanax mexicanus Mexican tetra - (species)	Astyanax mexicanus Mexican tetra - (species) D	MC1R	Astyanax mexicanus Mexican tetra - (species)	Published - Accepted by Curator
MC1R	Coloration (albinism)	Coding, SNP	Astyanax mexicanus Mexican tetra - (species) D	Intraspecific	Linkage Mapping	Gross JB; Borowsky R; Tabin CJ (2009) A novel role for Mc1r in the parallel evolution of depigmentation in independent populations of the [...]	GP00000568	MC1R Q01726	Morphology	Arg164Cys (position 160 in human; so this mutation resembles the human R160W hypomorphic human mutation)	Astyanax mexicanus Mexican tetra - (species)	Astyanax mexicanus Mexican tetra - (species) D	MC1R	Astyanax mexicanus Mexican tetra - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, SNP	Peromyscus polionotus oldfield mouse - (species)	Intraspecific	Linkage Mapping	Hoekstra HE; Hirschmann RJ; Bundey RA ; et al. (2006) A single amino acid mutation contributes to adaptive beach mouse color pattern.	GP00000594	MC1R Q01726	Morphology	R65C	Peromyscus polionotus oldfield mouse - (species)	Peromyscus polionotus oldfield mouse - (species)	MC1R	Peromyscus polionotus oldfield mouse - (species)	Published - Accepted by Curator
MC1R	Coloration (feathers)	Coding, SNP	Coturnix japonica Japanese quail - (species)	Domesticated	Linkage Mapping	Nadeau NJ; Minvielle F; Mundy NI (2006) Association of a Glu92Lys substitution in MC1R with extended brown in Japanese quail (Coturnix japon[...]	GP00000602	MC1R Q01726	Morphology	E92K	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species)	MC1R	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
MC1R	Coloration (feathers; eyes)	Coding, SNP	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Takeuchi S; Suzuki H; Yabuuchi M ; et al. (1996) A possible involvement of melanocortin 1-receptor in regulating feather color pigmentation in the ch[...] 2 Additional References Kerje S; Lind J; Schütz K (2003) Melanocortin 1-receptor (MC1R) mutations are associated with plumage colour in chicken. Dávila SG; Gil MG; Resino-Talaván P (2014) Association between polymorphism in the melanocortin 1 receptor gene and E locus plumage color pheno[...]	GP00000605	MC1R Q01726	Morphology	E92K; constitutive activation	Gallus gallus chicken - (species)	Gallus gallus chicken - (species)	MC1R	Gallus gallus chicken - (species)	Published - Accepted by Curator
MC1R	Coloration (skin)	Coding, Insertion N	Sus scrofa domesticus domestic pig - (subspecies) D	Domesticated	Linkage Mapping	Kijas JM; Moller M; Plastow G ; et al. (2001) A frameshift mutation in MC1R and a high frequency of somatic reversions cause black spotting in pig[...] 1 Additional References Liu R; Jin L; Long K (2016) Detection of genetic diversity and selection at the coding region of the melanocortin receptor 1 (MC[...]	GP00000631	MC1R Q01726	Morphology	2bp insertion at 23 generates early stop @ 56 & D"121"N ? N	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies) D	MC1R	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
MC4R	Feeding behavior	Coding, SNP	Astyanax mexicanus Mexican tetra - (species)	Intraspecific	Linkage Mapping	Aspiras AC; Rohner N; Martineau B ; et al. (2015) Melanocortin 4 receptor mutations contribute to the adaptation of cavefish to nutrient-poor conditio[...]	GP00000637	mc4r B0V1P1	Behavior	Gly145Ser (candidate mutation)	Astyanax mexicanus Mexican tetra - (species)	Astyanax mexicanus Mexican tetra - (species)	MC4R	Astyanax mexicanus Mexican tetra - (species)	Published - Accepted by Curator
MC4R	Sexual maturation (onset)	Gene Amplification, Complex Change	Xiphophorus maculatus southern platyfish - (species)	Intraspecific	Linkage Mapping	Lampert KP; Schmidt C; Fischer P ; et al. (2010) Determination of onset of sexual maturation and mating behavior by melanocortin receptor 4 polymorph[...]	GP00000638	mc4r B0V1P1	Physiology	unknown in the species used in crosses but a strong coreelation of gene copy number is found with the phenotype in two closely related species	Xiphophorus maculatus southern platyfish - (species)	Xiphophorus maculatus southern platyfish - (species)	MC4R	Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
MCO	Metal tolerance (copper)	Gene Amplification, Insertion	Erythranthe guttata spotted monkey flower - (species) D	Intraspecific	Linkage Mapping	Wright KM; Lloyd D; Lowry DB ; et al. (2013) Indirect evolution of hybrid lethality due to linkage with selected locus in Mimulus guttatus. 1 Additional References Wright Kevin M; Hellsten Uffe; Xu Chenling (2015 ) Adaptation to heavy-metal contaminated environments proceeds via selection on pre-existing genetic v[...]	GP00001814	LPR2 Q949X9	Physiology	several recent tandem duplications of this gene are responsible for the 12x increase in expression observed in copper tolerant lines - 6X fold enrichment of aligned reads at MCO	Erythranthe guttata spotted monkey flower - (species)	Erythranthe guttata spotted monkey flower - (species) D	MCO	Erythranthe guttata spotted monkey flower - (species)	Published - Accepted by Curator
MdMYB10	Coloration (fruit flesh; foliage)	Cis-regulatory, Unknown	Malus domestica apple - (species)	Domesticated	Linkage Mapping	Chagné D; Carlisle CM; Blond C ; et al. (2007) Mapping a candidate gene (MdMYB10) for red flesh and foliage colour in apple. 1 Additional References Chagné D; Lin-Wang K; Espley RV (2013) An ancient duplication of apple MYB transcription factors is responsible for novel red fruit-flesh p[...]	GP00000639	MYB1 A0SQ35	Morphology	unknown	Malus domestica apple - (species)	Malus domestica apple - (species)	MdMYB10	Malus domestica apple - (species)	Published - Accepted by Curator
MdMYB110a	Coloration (fruit flesh)	Cis-regulatory, Unknown	Malus domestica apple - (species)	Domesticated	Linkage Mapping	Chagné D; Lin-Wang K; Espley RV ; et al. (2013) An ancient duplication of apple MYB transcription factors is responsible for novel red fruit-flesh p[...]	GP00000640	K4FA06	Morphology	unknown	Malus domestica apple - (species)	Malus domestica apple - (species)	MdMYB110a	Malus domestica apple - (species)	Published - Accepted by Curator
Melanophilin (MLPH)	Coloration (coat)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Linkage Mapping	Ishida Y; David VA; Eizirik E ; et al. (2006) A homozygous single-base deletion in MLPH causes the dilute coat color phenotype in the domestic cat[...]	GP00000644	Mlph Q91V27	Morphology	1bp deletion resulting in frameshift c.83delT N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	Melanophilin (MLPH)	Felis catus domestic cat - (species)	Published - Accepted by Curator
Melanophilin (MLPH)	Coloration (feathers)	Unknown, Complex Change	Coturnix japonica Japanese quail - (species)	Domesticated	Linkage Mapping	Minvielle F; Cecchi T; Passamonti P ; et al. (2009) Plumage colour mutations and melanins in the feathers of the Japanese quail: a first comparison. 1 Additional References Bed'hom B; Vaez M; Coville JL (2012) The lavender plumage colour in Japanese quail is associated with a complex mutation in the region of[...]	GP00000650	Mlph Q91V27	Morphology	Large deletions and rearrangement with pseudogenization of MLPH and loss of two other genes	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species)	Melanophilin (MLPH)	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
Melanophilin (MLPH)	Coloration (coat)	Coding, SNP	Canis lupus familiaris dog - (subspecies) D	Domesticated	Linkage Mapping	Drögemüller C; Philipp U; Haase B ; et al. (2007) A noncoding melanophilin gene (MLPH) SNP at the splice donor of exon 1 represents a candidate causal[...]	GP00002330	Mlph Q91V27	Morphology	GA substitution at splice donor site causing Splicing defect	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	Melanophilin (MLPH)	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
metal tolerance protein1	Metal tolerance	Gene Amplification, Complex Change	Arabidopsis halleri (species) D	Interspecific	Linkage Mapping	Dräger DB; Desbrosses-Fonrouge AG; Krach C ; et al. (2004) Two genes encoding Arabidopsis halleri MTP1 metal transport proteins co-segregate with zinc toleranc[...] 1 Additional References Dräger DB; Desbrosses-Fonrouge AG; Krach C (2004) Two genes encoding Arabidopsis halleri MTP1 metal transport proteins co-segregate with zinc toleranc[...]	GP00000652	MTP1 Q9ZT63	Physiology	Copy number Variant	Arabidopsis lyrata (species)	Arabidopsis halleri (species) D	metal tolerance protein1	Arabidopsis halleri (species)	Published - Accepted by Curator
Mi1.2	Pathogen resistance (parasite)	Unknown, Unknown	Solanum lycopersicum tomato - (species)	Intraspecific	Linkage Mapping	Rossi M; Goggin FL; Milligan SB ; et al. (1998) The nematode resistance gene Mi of tomato confers resistance against the potato aphid. 2 Additional References Seah S; Yaghoobi J; Rossi M (2004) The nematode-resistance gene, Mi-1, is associated with an inverted chromosomal segment in susceptibl[...] Vos P; Simons G; Jesse T (1998) The tomato Mi-1 gene confers resistance to both root-knot nematodes and potato aphids.	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 Hayes BJ; Pryce J; Chamberlain AJ (2010) Genetic architecture of complex traits and accuracy of genomic prediction: coat colour, milk-fat per[...] Jivanji S; Worth G; Lopdell TJ (2019) Genome-wide association analysis reveals QTL and candidate mutations involved in white spotting in c[...]	GP00000656	Mitf Q08874	Morphology	unknown but association with intronic variant	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Microphtalmia-associated transcription factor	Bos taurus cattle - (species)	Published - Accepted by Curator
Microphtalmia-associated transcription factor	Coloration (feathers)	Cis-regulatory, Insertion	Anas platyrhynchos mallard - (species) D	Domesticated	Linkage Mapping	Zhou Z; Li M; Cheng H ; et al. (2018) An intercross population study reveals genes associated with body size and plumage color in ducks.	GP00002127	Mitf Q08874	Morphology	6.6kb insertion between exon 1M and exon 2, leads to lower expression of isoform MITF M in pekin white ducks	Anas platyrhynchos mallard - (species)	Anas platyrhynchos mallard - (species) D	Microphtalmia-associated transcription factor	Anas platyrhynchos mallard - (species)	Published - Accepted by Curator
Microphtalmia-associated transcription factor a (MITFA)	Coloration (amelanism)	Cis-regulatory, Deletion	Betta splendens Siamese fighting fish - (species) D	Domesticated	Linkage Mapping	Wang L; Sun F; Wan ZY ; et al. (2021) Genomic Basis of Striking Fin Shapes and Colors in the Fighting Fish.	GP00002379	Q6P0E9NULL	Morphology	"Comparison between homozygous albino and wild-type pigmented fish revealed a cluster of indels and SNPs about 25 kb upstream of mitfa, including a 366-bp deletion in the albino mutant. Genotyping this deletion in ∼1,000 fish revealed that this deletion was strictly correlated with the albino phenotype (supplementary fig. S14 and table S9, Supplementary Material online). These data suggest that the 366-bp deletion is a distant cis-regulatory element and could underlie the albino phenotype."	Betta splendens Siamese fighting fish - (species)	Betta splendens Siamese fighting fish - (species) D	Microphtalmia-associated transcription factor a (MITFA)	Betta splendens Siamese fighting fish - (species)	Published - Accepted by Curator
miR-15a-16	Body size (weight)	Cis-regulatory, Insertion N	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Jia X; Lin H; Nie Q ; et al. (2016) A short insertion mutation disrupts genesis of miR-16 and causes increased body weight in domesticat[...]	GP00002247		Morphology	54-bp insertion introducing splicing site that affect the mature transcript N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	miR-15a-16	Gallus gallus chicken - (species)	Published - Accepted by Curator
mir-92a	Trichome pattern (leg)	Cis-regulatory, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Arif S; Murat S; Almudi I ; et al. (2013) Evolution of mir-92a underlies natural morphological variation in Drosophila melanogaster.	GP00000661		Morphology	Not identified	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	mir-92a	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
MITOGEN-ACTIVATED PROTEIN KINASE 12 (MPK12)	Ozone sensitivity (stomata opening and stomatal CO2-sensitivity)	Coding, SNP	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Jakobson L; Vaahtera L; Tõldsepp K ; et al. (2016) Natural Variation in Arabidopsis Cvi-0 Accession Reveals an Important Role of MPK12 in Guard Cell CO[...]	GP00001383	MPK12 Q8GYQ5	Physiology	G53R	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	MITOGEN-ACTIVATED PROTEIN KINASE 12 (MPK12)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
MKT1	Temperature tolerance Virulence Sporulation efficiency Sporulation efficiency Xenobiotic resistance (alcohol; ethanol) Xenobiotic resistance (genotoxic DNA-damage agent)	Coding, SNP	Saccharomyces cerevisiae baker's yeast - (species)	Domesticated	Linkage Mapping	Steinmetz LM; Sinha H; Richards DR ; et al. (2002) Dissecting the architecture of a quantitative trait locus in yeast. 5 Additional References Sinha H; Nicholson BP; Steinmetz LM (2006) Complex genetic interactions in a quantitative trait locus. Demogines A; Smith E; Kruglyak L (2008) Identification and dissection of a complex DNA repair sensitivity phenotype in Baker's yeast. Swinnen S; Schaerlaekens K; Pais T (2012) Identification of novel causative genes determining the complex trait of high ethanol tolerance in y[...] Ehrenreich IM; Torabi N; Jia Y (2010) Dissection of genetically complex traits with extremely large pools of yeast segregants. Deutschbauer AM; Davis RW (2005) Quantitative trait loci mapped to single-nucleotide resolution in yeast.	GP00000666	MKT1 P40850	Physiology Physiology Physiology Physiology Physiology Physiology	G30D (functionally verified); or haplotype including G30D (functionally verified)	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	MKT1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
Mla (=Sr33/AetRGA1e)	Pathogen resistance	Coding, Unknown	Aegilops tauschii (species)	Domesticated	Linkage Mapping	Periyannan S; Moore J; Ayliffe M ; et al. (2013) The gene Sr33, an ortholog of barley Mla genes, encodes resistance to wheat stem rust race Ug99.	GP00000667	Mla1 Q7EXP5	Physiology	Unknown	Triticum aestivum bread wheat - (species)	Aegilops tauschii (species)	Mla (=Sr33/AetRGA1e)	Aegilops tauschii (species)	Published - Accepted by Curator
Mla1	Pathogen resistance	Coding, SNP	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Mahadevappa M; Descenzo RA; Wise RP (1994) Recombination of alleles conferring specific resistance to powdery mildew at the Mla locus in barley[...] 3 Additional References Wei F; Gobelman-Werner K; Morroll SM (1999) The Mla (powdery mildew) resistance cluster is associated with three NBS-LRR gene families and suppr[...] Halterman D; Zhou F; Wei F (2001) The MLA6 coiled-coil, NBS-LRR protein confers AvrMla6-dependent resistance specificity to Blumeria g[...] Jordan T; Seeholzer S; Schwizer S (2011) The wheat Mla homologue TmMla1 exhibits an evolutionarily conserved function against powdery mildew [...]	GP00000668	Mla1 Q7EXP5	Physiology	Coding variation in the LRR domain - exact amino acid change unknown	Hordeum vulgare (species)	Hordeum vulgare (species)	Mla1	Hordeum vulgare (species)	Published - Accepted by Curator
Mla13	Pathogen resistance	Coding, SNP	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Mahadevappa M; Descenzo RA; Wise RP (1994) Recombination of alleles conferring specific resistance to powdery mildew at the Mla locus in barley[...] 2 Additional References Wei F; Gobelman-Werner K; Morroll SM (1999) The Mla (powdery mildew) resistance cluster is associated with three NBS-LRR gene families and suppr[...] Halterman D; Zhou F; Wei F (2001) The MLA6 coiled-coil, NBS-LRR protein confers AvrMla6-dependent resistance specificity to Blumeria g[...]	GP00000670	Mla1 Q7EXP5	Physiology	Coding variation in the LRR domain - exact amino acid change unknown	Hordeum vulgare (species)	Hordeum vulgare (species)	Mla13	Hordeum vulgare (species)	Published - Accepted by Curator
Mla6	Pathogen resistance	Coding, SNP	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Mahadevappa M; Descenzo RA; Wise RP (1994) Recombination of alleles conferring specific resistance to powdery mildew at the Mla locus in barley[...] 2 Additional References Wei F; Gobelman-Werner K; Morroll SM (1999) The Mla (powdery mildew) resistance cluster is associated with three NBS-LRR gene families and suppr[...] Halterman D; Zhou F; Wei F (2001) The MLA6 coiled-coil, NBS-LRR protein confers AvrMla6-dependent resistance specificity to Blumeria g[...]	GP00000671	Mla1 Q7EXP5	Physiology	Coding variation in the LRR domain - exact amino acid change(s) unknown	Hordeum vulgare (species)	Hordeum vulgare (species)	Mla6	Hordeum vulgare (species)	Published - Accepted by Curator
MLO	Pathogen resistance	Gene Amplification, Insertion	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Piffanelli P; Ramsay L; Waugh R ; et al. (2004) A barley cultivation-associated polymorphism conveys resistance to powdery mildew.	GP00000672	MLO P93766	Physiology	Tandem array duplication including promoter and partial CDS; resulting in loss-of-function by transcriptional interference	Hordeum vulgare (species)	Hordeum vulgare (species) D	MLO	Hordeum vulgare (species)	Published - Accepted by Curator
MLO1	Pathogen resistance	Coding, SNP N	Pisum sativum pea - (species)	Domesticated	Linkage Mapping	Pavan S; Schiavulli A; Appiano M ; et al. (2011) Pea powdery mildew er1 resistance is associated to loss-of-function mutations at a MLO homologous lo[...]	GP00000673	MLO P93766	Physiology	1bp substitution resulting in premature stop codon N	Pisum sativum pea - (species)	Pisum sativum pea - (species)	MLO1	Pisum sativum pea - (species)	Published - Accepted by Curator
MLO1	Pathogen resistance	Coding, Deletion N	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Bai Y; Pavan S; Zheng Z ; et al. (2008) Naturally occurring broad-spectrum powdery mildew resistance in a Central American tomato accession [...]	GP00000674	MLO P93766	Physiology	19bp deletion resulting in frameshift N	Solanum lycopersicum tomato - (species)	Solanum lycopersicum tomato - (species) D	MLO1	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
MNR2	Bird head comb Fertility (sperm motility)	Gene Amplification, Inversion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Imsland F; Feng C; Boije H ; et al. (2012) The Rose-comb mutation in chickens constitutes a structural rearrangement causing both altered comb [...]	GP00000675	MNR2 Q9YHY8	Morphology Physiology	7.4Mb inversion (and secondary structural re-arrangement in some individuals)	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	MNR2	Gallus gallus chicken - (species)	Published - Accepted by Curator
Molybdenum transporter1 (MOT1)	Metal tolerance	Cis-regulatory, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Baxter I; Muthukumar B; Park HC ; et al. (2008) Variation in molybdenum content across broadly distributed populations of Arabidopsis thaliana is co[...] 1 Additional References Forsberg SK; Andreatta ME; Huang XY (2015) The Multi-allelic Genetic Architecture of a Variance-Heterogeneity Locus for Molybdenum Concentratio[...]	GP00000676	MOT1 Q9SL95	Physiology	53bp deletion in promoter	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Molybdenum transporter1 (MOT1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Molybdenum transporter1 (MOT1)	Metal tolerance	Coding, SNP	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Poormohammad Kiani S; Trontin C; Andreatta M ; et al. (2012) Allelic heterogeneity and trade-off shape natural variation for response to soil micronutrient.	GP00001270	MOT1 Q9SL95	Physiology	D104Y	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Molybdenum transporter1 (MOT1)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
MPK12	Water absorption (water use efficiency)	Coding, SNP	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Des Marais DL; Auchincloss LC; Sukamtoh E ; et al. (2014) Variation in MPK12 affects water use efficiency in Arabidopsis and reveals a pleiotropic link betwee[...]	GP00001283	MPK12 Q8GYQ5	Physiology	GGT to CGT @position 53	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	MPK12	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
MRS1	F2 lethality	3 Mutations: Coding SNP	Saccharomyces cerevisiae baker's yeast - (species) D	Interspecific	Linkage Mapping	Chou JY; Hung YS; Lin KH ; et al. (2010) Multiple molecular mechanisms cause reproductive isolation between three yeast species.	GP00000678	MRS1 P07266	Physiology	3 mutations	Saccharomyces paradoxus (species) Saccharomyces bayanus (species) Saccharomyces kudriavzevii (species)	Saccharomyces cerevisiae baker's yeast - (species) D	MRS1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
mucilage-modified 2 (mum2)	Mucilage (seeds)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Domesticated	Linkage Mapping	Macquet A; Ralet MC; Loudet O ; et al. (2007) A naturally occurring mutation in an Arabidopsis accession affects a beta-D-galactosidase that incre[...]	GP00000681	BGAL6 Q9FFN4	Physiology	44bp deletion in exon 15; from Leu-662 onwards. This deletion causes a frame-shift mutation changing the next 23 amino acids followed by the introduction of a stop codon. N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	mucilage-modified 2 (mum2)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Muscle-specific adenosine monophosphate-activated protein kinase (PRKAG3)	Glycogen content (muscles)	Coding, SNP	Sus scrofa domesticus domestic pig - (subspecies) D	Domesticated	Linkage Mapping	Milan D; Jeon JT; Looft C ; et al. (2000) A mutation in PRKAG3 associated with excess glycogen content in pig skeletal muscle.	GP00000682	Prkag3 Q8BGM7	Physiology	R200Q in CBS1; which is the most conserved region among AMPK g chain isoforms; and R200 is conserved in mammalian and Drosophila AMPK g isoforms	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies) D	Muscle-specific adenosine monophosphate-activated protein kinase (PRKAG3)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
MYB-FL	Coloration (flower ; UV absorbance)	Cis-regulatory, Insertion	Petunia axillaris (species) D	Interspecific	Linkage Mapping	Sheehan H; Moser M; Klahre U ; et al. (2016) MYB-FL controls gain and loss of floral UV absorbance, a key trait affecting pollinator preference a[...]	GP00001589	MYB-FL A0A0S3CVD3	Morphology	A 977-kb insertion 12 bp upstream of the predicted TATA-binding box is causing upregulation of the promoter	Petunia integrifolia (species)	Petunia axillaris (species) D	MYB-FL	Petunia axillaris (species)	Published - Accepted by Curator
MYB-FL	Coloration (flower ; UV absorbance)	Coding, Deletion N	Petunia exserta (species) D	Interspecific	Linkage Mapping	Sheehan H; Moser M; Klahre U ; et al. (2016) MYB-FL controls gain and loss of floral UV absorbance, a key trait affecting pollinator preference a[...]	GP00001590	MYB-FL A0A0S3CVC7	Morphology	A 1-bp deletion in exon 3 causing a frameshift resulting in a truncated protein N	Petunia axillaris (species)	Petunia exserta (species) D	MYB-FL	Petunia exserta (species)	Published - Accepted by Curator
Myostatin (MSTN = GDF8)	Muscular mass (double muscling)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Grobet L; Martin LJ; Poncelet D ; et al. (1997) A deletion in the bovine myostatin gene causes the double-muscled phenotype in cattle. 2 Additional References McPherron AC; Lee SJ (1997) Double muscling in cattle due to mutations in the myostatin gene. Kambadur R; Sharma M; Smith TP (1997) Mutations in myostatin (GDF8) in double-muscled Belgian Blue and Piedmontese cattle.	GP00000685	MSTN O14793	Morphology	nt821 11bp deletion c.821-831delTGAACACTCCA p.Glu275ArgfsX14 N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Myostatin (MSTN = GDF8)	Bos taurus cattle - (species)	Published - Accepted by Curator
Myostatin (MSTN = GDF8)	Muscular mass (double muscling)	Coding, SNP	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Alexander LJ; Kuehn LA; Smith TP ; et al. (2009) A Limousin specific myostatin allele affects longissimus muscle area and fatty acid profiles in a Wa[...]	GP00000692	MSTN O14793	Morphology	c.282C>A p.Phe94Leu	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Myostatin (MSTN = GDF8)	Bos taurus cattle - (species)	Published - Accepted by Curator
Myostatin (MSTN = GDF8)	Muscular mass (double muscling)	Cis-regulatory, SNP	Ovis aries sheep - (species)	Domesticated	Linkage Mapping	Clop A; Marcq F; Takeda H ; et al. (2006) A mutation creating a potential illegitimate microRNA target site in the myostatin gene affects musc[...]	GP00000695	MSTN O14793	Morphology	1bp change; generates binding site for two muscle-expressed miRNAs; causing mRNA degradation and lower levels of circulating myostatin G to A transition in the 3' UTR that creates a target site for mir1 and mir206 microRNAs	Ovis aries sheep - (species)	Ovis aries sheep - (species)	Myostatin (MSTN = GDF8)	Ovis aries sheep - (species)	Published - Accepted by Curator
nAChR	Xenobiotic resistance (insecticide; spinosad)	Coding, SNP N	Plutella xylostella diamondback moth - (species) D	Intraspecific	Linkage Mapping	Baxter SW; Chen M; Dawson A ; et al. (2010) Mis-spliced transcripts of nicotinic acetylcholine receptor alpha6 are associated with field evolved[...]	GP00002651	CHRNA6 Q15825	Physiology	A mutation within the ninth intron splice junction of Pxalpha6 results in mis-splicing of transcripts and produce a predicted protein truncated between the third and fourth transmembrane domains. N	Plutella xylostella diamondback moth - (species)	Plutella xylostella diamondback moth - (species) D	nAChR	Plutella xylostella diamondback moth - (species)	Published - Accepted by Curator
NAM-B1 (=Gpc-B1)	Grain content Senescence (grain)	Coding, Insertion N	Triticum turgidum (species) D	Domesticated	Linkage Mapping	Uauy C; Distelfeld A; Fahima T ; et al. (2006) A NAC Gene regulating senescence improves grain protein, zinc, and iron content in wheat.	GP00000717	NAM-B1 A0SPJ4	Physiology Physiology	1bp insertion resulting in frameshift N	Triticum turgidum (species)	Triticum turgidum (species) D	NAM-B1 (=Gpc-B1)	Triticum turgidum (species)	Published - Accepted by Curator
nath-10	Fertility (sperm number; egg laying rate)	Coding, SNP	Caenorhabditis elegans (species)	Intraspecific	Linkage Mapping	Duveau F; Félix MA (2012) Role of pleiotropy in the evolution of a cryptic developmental variation in Caenorhabditis elegans.	GP00000718	nath-10 O01757	Morphology	Met746Ile (according to Table S2 C>T but it should be G>A - Needs curation)	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	nath-10	Caenorhabditis elegans (species)	Published - Accepted by Curator
NCED4	Seed dormancy	Unknown, Unknown	Lactuca sativa (species) D	Domesticated	Linkage Mapping	Argyris J; Truco MJ; Ochoa O ; et al. (2011) A gene encoding an abscisic acid biosynthetic enzyme (LsNCED4) collocates with the high temperature [...] 1 Additional References Huo H; Dahal P; Kunusoth K (2013) Expression of 9-cis-EPOXYCAROTENOID DIOXYGENASE4 is essential for thermoinhibition of lettuce seed g[...]	GP00000737	CCD4 O49675	Physiology	unknown	Lactuca serriola (species)	Lactuca sativa (species) D	NCED4	Lactuca sativa (species)	Published - Accepted by Curator
npr-1	Aggregation behavior Foraging behavior CO2 avoidance Pathogen avoidance Fertility (competitive fitness)	Coding, SNP	Caenorhabditis elegans (species)	Intraspecific	Linkage Mapping	de Bono M; Bargmann CI (1998) Natural variation in a neuropeptide Y receptor homolog modifies social behavior and food response in[...] 5 Additional References Gloria-Soria A; Azevedo RB (2008) npr-1 Regulates foraging and dispersal strategies in Caenorhabditis elegans. Andersen EC; Bloom JS; Gerke JP (2014) A variant in the neuropeptide receptor npr-1 is a major determinant of Caenorhabditis elegans growth[...] McGrath PT; Rockman MV; Zimmer M (2009) Quantitative mapping of a digenic behavioral trait implicates globin variation in C. elegans sensory[...] Reddy KC; Andersen EC; Kruglyak L (2009) A polymorphism in npr-1 is a behavioral determinant of pathogen susceptibility in C. elegans. Burga A; Ben-David E; Lemus Vergara T (2019) Fast genetic mapping of complex traits in C. elegans using millions of individuals in bulk.	GP00000739	npr-1 Q18534	Behavior Behavior Behavior Behavior Behavior; Physiology	Val215Phe (pleiotropic; see other entries)	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	npr-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
Nramp aluminum transporter1	Metal tolerance	2 Mutations: Coding SNP	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Famoso AN; Zhao K; Clark RT ; et al. (2011) Genetic architecture of aluminum tolerance in rice (Oryza sativa) determined through genome-wide ass[...]	GP00000740	NRAT1 Q6ZG85	Physiology	2 mutations	Oryza sativa rice - (species)	Oryza sativa rice - (species)	Nramp aluminum transporter1	Oryza sativa rice - (species)	Published - Accepted by Curator
NRT1.1B	Nitrogen use (metabolism)	Coding, SNP	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Hu B; Wang W; Ou S ; et al. (2015) Variation in NRT1.1B contributes to nitrate-use divergence between rice subspecies.	GP00001375	NPF6.3 Q05085	Physiology	c.980C>T p.Met327Thr	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	NRT1.1B	Oryza sativa rice - (species)	Published - Accepted by Curator
NUDT7	Meat color	Cis-regulatory, Unknown	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Taniguchi M; Hayashi T; Nii M ; et al. (2010) Fine mapping of quantitative trait loci for meat color on Sus scrofa chromosome 6: analysis of the s[...] 1 Additional References Taniguchi M; Hayashi T; Nii M (2010) Overexpression of NUDT7, a candidate quantitative trait locus for pork color, downregulates heme bio[...]	GP00000741	Nudt7 Q99P30	Physiology	unknown	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	NUDT7	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
Nup160	Hybrid incompatibility (F1 male sterility)	Coding, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Tang S; Presgraves DC (2009) Evolution of the Drosophila nuclear pore complex results in multiple hybrid incompatibilities.	GP00000742	Nup160 Q9VKJ3	Physiology	Coding divergence	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	Nup160	Drosophila simulans (species)	Published - Accepted by Curator
Nup96	Hybrid incompatibility (F1 male sterility)	Coding, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Presgraves DC; Balagopalan L; Abmayr SM ; et al. (2003) Adaptive evolution drives divergence of a hybrid inviability gene between two species of Drosophila.	GP00000743	NUP96 Q8LLD0	Physiology	Coding divergence	Drosophila melanogaster fruit fly - (species)	Drosophila simulans (species)	Nup96	Drosophila simulans (species)	Published - Accepted by Curator
nurf-1	Fertility (reproductive timing; egg laying rate) Lifespan Growth rate Diapause (dauer formation)	Coding, Deletion	Caenorhabditis elegans (species) D	Domesticated	Linkage Mapping	Large EE; Xu W; Zhao Y ; et al. (2016) Selection on a Subunit of the NURF Chromatin Remodeler Modifies Life History Traits in a Domesticate[...]	GP00001318	nurf-1 Q6BER5	Physiology Physiology Physiology Physiology	60bp deletion	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	nurf-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
NV10127-NV10128-NV10129 gene cluster	Pheromone production (isomeric/chirality divergence)	Unknown, Unknown	Nasonia giraulti (species)	Interspecific	Linkage Mapping	Niehuis O; Buellesbach J; Gibson JD ; et al. (2013) Behavioural and genetic analyses of Nasonia shed light on the evolution of sex pheromones.	GP00000744	NV10127 L8BRU0	Physiology	Not identified. Gene conversion between the three paralogues in tandem	Nasonia vitripennis jewel wasp - (species)	Nasonia giraulti (species)	NV10127-NV10128-NV10129 gene cluster	Nasonia giraulti (species)	Published - Accepted by Curator
Oca2	Coloration (albinism) Catecholamine metabolism	Coding, Deletion N	Astyanax mexicanus Mexican tetra - (species) D	Intraspecific	Linkage Mapping	Protas ME; Hersey C; Kochanek D ; et al. (2006) Genetic analysis of cavefish reveals molecular convergence in the evolution of albinism. 2 Additional References Bilandžija H; Abraham L; Ma L (2018) Behavioural changes controlled by catecholaminergic systems explain recurrent loss of pigmentation i[...] Klaassen H; Wang Y; Adamski K (2018) CRISPR mutagenesis confirms the role of oca2 in melanin pigmentation in Astyanax mexicanus.	GP00000745	Oca2 Q62052	Morphology Physiology	Deletion of exon 21 N	Astyanax mexicanus Mexican tetra - (species)	Astyanax mexicanus Mexican tetra - (species) D	Oca2	Astyanax mexicanus Mexican tetra - (species)	Published - Accepted by Curator
Oca2	Coloration (albinism) Catecholamine metabolism	Coding, Deletion N	Astyanax mexicanus Mexican tetra - (species) D	Intraspecific	Linkage Mapping	Protas ME; Hersey C; Kochanek D ; et al. (2006) Genetic analysis of cavefish reveals molecular convergence in the evolution of albinism. 2 Additional References Bilandžija H; Abraham L; Ma L (2018) Behavioural changes controlled by catecholaminergic systems explain recurrent loss of pigmentation i[...] Klaassen H; Wang Y; Adamski K (2018) CRISPR mutagenesis confirms the role of oca2 in melanin pigmentation in Astyanax mexicanus.	GP00000746	Oca2 Q62052	Morphology Physiology	Almost complete deletion of exon 24; + 2 a.a subsitutions at conserved positions - the two point mutations do not drastically affect the function of OCA2 in cell lines suggesting that the exon 24 deletion is the mutation that causes albinism in the Pachón population N	Astyanax mexicanus Mexican tetra - (species)	Astyanax mexicanus Mexican tetra - (species) D	Oca2	Astyanax mexicanus Mexican tetra - (species)	Published - Accepted by Curator
Oca2	Coloration (albinism)	Coding, Insertion N	Pantherophis guttatus (species) D	Intraspecific	Linkage Mapping	Saenko SV; Lamichhaney S; Martinez Barrio A ; et al. (2015) Amelanism in the corn snake is associated with the insertion of an LTR-retrotransposon in the OCA2 g[...]	GP00001619	OCA2 Q04671	Morphology	insertion of an LTR-retrotransposon (5832-bp) in the 11th intron resulting after splicing in an additional 397-bp fragment constituted of 3 new exons inserted between exons 11 and 12. Generates truncated protein with two stop codons N	Pantherophis guttatus (species)	Pantherophis guttatus (species) D	Oca2	Pantherophis guttatus (species)	Published - Accepted by Curator
ocimene synthase (OS)	Pheromone production (cuticular hydrocarbons ; beta-ocimene)	Coding, Unknown	Heliconius cydno (species) D	Interspecific	Linkage Mapping	Darragh K; Orteu A; Black D ; et al. (2021) A novel terpene synthase controls differences in anti-aphrodisiac pheromone production between close[...]	GP00002426	TPS A0A7D0AGU9	Physiology	gain of expression - in vitro assay of the protein activity in E. coli - several amino acid changes between the 2 species	Heliconius melpomene postman butterfly - (species)	Heliconius cydno (species) D	ocimene synthase (OS)	Heliconius cydno (species)	Published - Accepted by Curator
OCYMENE SYNTHASE (OS)	Fragrance (floral terpenoid volatiles; E- beta-ocimene)	Coding, SNP N	Erythranthe cardinalis (species) D	Interspecific	Linkage Mapping	Byers KJ; Vela JP; Peng F ; et al. (2014) Floral volatile alleles can contribute to pollinator-mediated reproductive isolation in monkeyflower[...] 1 Additional References Peng F; Byers KJRP; Bradshaw HD (2017) Less is more: Independent loss-of-function OCIMENE SYNTHASE alleles parallel pollination syndrome di[...]	GP00001760	TPS02 P0CJ43	Physiology	multiple candidate coding sequence differences - together they eliminate the ability of the enzyme to produce E-beta-ocimene - effect of individual mutations not tested N	Erythranthe lewisii (species)	Erythranthe cardinalis (species) D	OCYMENE SYNTHASE (OS)	Erythranthe cardinalis (species)	Published - Accepted by Curator
ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]	Fragrance	Cis-regulatory, Unknown	Petunia exserta (species)	Interspecific	Linkage Mapping	Klahre U; Gurba A; Hermann K ; et al. (2011) Pollinator choice in Petunia depends on two major genetic Loci for floral scent production.	GP00000750	ODO1 Q50EX6	Physiology	Not identified; but probably homologous to P. hybrida Mitchell x R27 promoter variation since these P. hybrida accessions are derived from a P. axillaris x P. integrifolia cross	Petunia axillaris (species)	Petunia exserta (species)	ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]	Petunia exserta (species)	Published - Accepted by Curator
ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]	Fragrance	Cis-regulatory, SNP	Petunia x hybrida (species)	Domesticated	Linkage Mapping	Van Moerkercke A; Haring MA; Schuurink RC (2011) The transcription factor EMISSION OF BENZENOIDS II activates the MYB ODORANT1 promoter at a MYB bind[...]	GP00000751	ODO1 Q50EX6	Physiology	C/T substitution in enhancer region MYB-TF binding site	Petunia x hybrida (species)	Petunia x hybrida (species)	ODORANT1 [pseudo-replication between 2 ODO1 entries due to possible homology between alleles]	Petunia x hybrida (species)	Published - Accepted by Curator
Odysseus-site homeobox	Hybrid incompatibility (F1 male sterility)	Unknown, Unknown	Drosophila simulans (species)	Interspecific	Linkage Mapping	Bayes JJ; Malik HS (2009) Altered heterochromatin binding by a hybrid sterility protein in Drosophila sibling species.	GP00000752	OdsH Q9VX20	Physiology	Rapid coding divergence	Drosophila mauritiana (species)	Drosophila simulans (species)	Odysseus-site homeobox	Drosophila simulans (species)	Published - Accepted by Curator
opaque2 (O2)	Lysine content (endosperm)	Coding, Deletion N	Zea mays (species) D	Domesticated	Linkage Mapping	Schmidt RJ; Burr FA; Burr B (1987) Transposon tagging and molecular analysis of the maize regulatory locus opaque-2. 1 Additional References Hartings H; Lazzaroni N; Rossi V (1995) Molecular analysis of opaque-2 alleles from Zea mays L. reveals the nature of mutational events and [...]	GP00000753	O2 P12959	Physiology	1bp deletion predicted to cause premature termination of translation N	Zea mays (species)	Zea mays (species) D	opaque2 (O2)	Zea mays (species)	Published - Accepted by Curator
opaque2 (O2)	Lysine content (endosperm)	Cis-regulatory, Insertion	Zea mays (species) D	Domesticated	Linkage Mapping	Schmidt RJ; Burr FA; Burr B (1987) Transposon tagging and molecular analysis of the maize regulatory locus opaque-2.	GP00000754	O2 P12959	Physiology	insertion of a non-autonomous rbg transposable element in the untranslated leader sequence of the O2 gene	Zea mays (species)	Zea mays (species) D	opaque2 (O2)	Zea mays (species)	Published - Accepted by Curator
Optix	Coloration (wing, Mullerian mimicry)	Cis-regulatory, Unknown	Heliconius pachinus (species)	Intraspecific	Linkage Mapping	Reed RD; Papa R; Martin A ; et al. (2011) optix drives the repeated convergent evolution of butterfly wing pattern mimicry. 1 Additional References Hines HM; Counterman BA; Papa R (2011) Wing patterning gene redefines the mimetic history of Heliconius butterflies.	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 Hines HM; Counterman BA; Papa R (2011) Wing patterning gene redefines the mimetic history of Heliconius butterflies.	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 Hines HM; Counterman BA; Papa R (2011) Wing patterning gene redefines the mimetic history of Heliconius butterflies.	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 Hines HM; Counterman BA; Papa R (2011) Wing patterning gene redefines the mimetic history of Heliconius butterflies.	GP00000798	Optix Q95RW8	Morphology	Not identified	Heliconius melpomene postman butterfly - (species)	Heliconius melpomene postman butterfly - (species)	Optix	Heliconius melpomene postman butterfly - (species)	Published - Accepted by Curator
ORGANIC CATION TRANSPORTER 1	Root growth (root length response to exogenous cadaverine)	Cis-regulatory, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Strohm AK; Vaughn LM; Masson PH (2015) Natural variation in the expression of ORGANIC CATION TRANSPORTER 1 affects root length responses to[...]	GP00001279	OCT1 Q9CAT6	Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	ORGANIC CATION TRANSPORTER 1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Os07g0603400	Grain size Grain quality	2 Mutations: Coding SNP N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Wang Y; Xiong G; Hu J ; et al. (2015) Copy number variation at the GL7 locus contributes to grain size diversity in rice.	GP00001542	Os07g0603400 A3BLY4	Morphology Physiology	2 mutations	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Os07g0603400	Oryza sativa rice - (species)	Published - Accepted by Curator
OsC1	Coloration (loss of apiculus color)	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Saitoh K; Onishi K; Mikami I ; et al. (2004) Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associ[...] 2 Additional References Huang X; Wei X; Sang T (2010) Genome-wide association studies of 14 agronomic traits in rice landraces. Huang X; Kurata N; Wei X (2012) A map of rice genome variation reveals the origin of cultivated rice.	GP00000805	C Q76B79	Morphology	10bp deletion N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	OsC1	Oryza sativa rice - (species)	Published - Accepted by Curator
OsC1	Coloration (loss of apiculus color)	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Saitoh K; Onishi K; Mikami I ; et al. (2004) Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associ[...] 2 Additional References Huang X; Wei X; Sang T (2010) Genome-wide association studies of 14 agronomic traits in rice landraces. Huang X; Kurata N; Wei X (2012) A map of rice genome variation reveals the origin of cultivated rice.	GP00000806	C Q76B79	Morphology	2bp deletion N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	OsC1	Oryza sativa rice - (species)	Published - Accepted by Curator
OsCKX2=Gn1a	Grain yield	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Ashikari M; Sakakibara H; Lin S ; et al. (2005) Cytokinin oxidase regulates rice grain production.	GP00000807	CKX2 Q4ADV8	Morphology	11bp deletion causing premature stop codon N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	OsCKX2=Gn1a	Oryza sativa rice - (species)	Published - Accepted by Curator
OsCKX2=Gn1a	Grain yield	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Ashikari M; Sakakibara H; Lin S ; et al. (2005) Cytokinin oxidase regulates rice grain production.	GP00000808	CKX2 Q4ADV8	Morphology	Not identified	Oryza sativa rice - (species)	Oryza sativa rice - (species)	OsCKX2=Gn1a	Oryza sativa rice - (species)	Published - Accepted by Curator
OsCKX2=Gn1a	Grain yield	Cis-regulatory, Unknown	Triticum aestivum bread wheat - (species)	Domesticated	Linkage Mapping	Zhang L; Zhao YL; Gao LF ; et al. (2012) TaCKX6-D1, the ortholog of rice OsCKX2, is associated with grain weight in hexaploid wheat.	GP00000809	CKX2 Q4ADV8	Morphology	unknown	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species)	OsCKX2=Gn1a	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
OsGA20ox1	Seedling vigor	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Abe A; Takagi H; Fujibe T ; et al. (2012) OsGA20ox1, a candidate gene for a major QTL controlling seedling vigor in rice.	GP00000810	GA20OX1 P93771	Physiology	unknown ; no coding variation	Oryza sativa rice - (species)	Oryza sativa rice - (species)	OsGA20ox1	Oryza sativa rice - (species)	Published - Accepted by Curator
OsLG1	Seed shattering (panicle shape)	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Ishii T; Numaguchi K; Miura K ; et al. (2013) OsLG1 regulates a closed panicle trait in domesticated rice.	GP00000811	SPL8 Q7XPY1	Morphology	unknown but fine-mapped 9.3kb region	Oryza rufipogon (species)	Oryza sativa rice - (species)	OsLG1	Oryza sativa rice - (species)	Published - Accepted by Curator
OsPPKL1/qGL3	Grain size	Coding, SNP	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Zhang X; Wang J; Huang J ; et al. (2012) Rare allele of OsPPKL1 associated with grain length causes extra-large grain and a significant yield[...]	GP00000812	qLTG-3-1 B3IWI0	Morphology	Asp364Glu	Oryza sativa rice - (species)	Oryza sativa rice - (species)	OsPPKL1/qGL3	Oryza sativa rice - (species)	Published - Accepted by Curator
OsSPL14 / WFP	Grain yield	Cis-regulatory, SNP	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Jiao Y; Wang Y; Xue D ; et al. (2010) Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice. 1 Additional References Miura K; Ikeda M; Matsubara A (2010) OsSPL14 promotes panicle branching and higher grain productivity in rice.	GP00000813	IPA1 D8WJ58	Morphology	Point mutation resulting in altered binding of a micro-RNA	Oryza sativa rice - (species)	Oryza sativa rice - (species)	OsSPL14 / WFP	Oryza sativa rice - (species)	Published - Accepted by Curator
OsSPL16	Grain size Grain shape	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Wang S; Wu K; Yuan Q ; et al. (2012) Control of grain size, shape and quality by OsSPL16 in rice. 1 Additional References Wang S; Li S; Liu Q (2015) The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and [...]	GP00000814	SPL16 L0AP48	Morphology Morphology	Promoter variation	Oryza sativa rice - (species)	Oryza sativa rice - (species)	OsSPL16	Oryza sativa rice - (species)	Published - Accepted by Curator
OVATE	Fruit shape	Coding, SNP N	Solanum lycopersicum tomato - (species)	Domesticated	Linkage Mapping	Liu J; Van Eck J; Cong B ; et al. (2002) A new class of regulatory genes underlying the cause of pear-shaped tomato fruit.	GP00000815	Q8GSM4	Morphology