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
ABCA2	Xenobiotic resistance (insecticide; Bt Cry2Ab toxin)	Coding, Deletion N	Helicoverpa armigera cotton bollworm - (species) D	Intraspecific	Candidate Gene	Tay WT; Mahon RJ; Heckel DG ; et al. (2015) Insect Resistance to Bacillus thuringiensis Toxin Cry2Ab Is Conferred by Mutations in an ABC Transpo[...]	GP00000003	ABCA2 A0A0S0G7V0	Physiology	5bp deletion 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, Deletion N	Helicoverpa punctigera (species) D	Intraspecific	Candidate Gene	Tay WT; Mahon RJ; Heckel DG ; et al. (2015) Insect Resistance to Bacillus thuringiensis Toxin Cry2Ab Is Conferred by Mutations in an ABC Transpo[...]	GP00002056	ABCA2 A0A0S0G7V0	Physiology	14bp deletion resulting in missense mutations. N	Helicoverpa punctigera (species)	Helicoverpa punctigera (species) D	ABCA2	Helicoverpa punctigera (species)	Published - Accepted by Curator
ABCB1	Xenobiotic resistance (insecticide; Bt Cry3Aa toxin)	Coding, Deletion N	Chrysomela tremula (species) D	Intraspecific	Candidate Gene	Pauchet Y; Bretschneider A; Augustin S ; et al. (2016) A P-Glycoprotein Is Linked to Resistance to the Bacillus thuringiensis Cry3Aa Toxin in a Leaf Beetle[...]	GP00002466	ABCB1 P08183	Physiology	a four-base-pair deletion at position 1561 introducing a frame shift with a premature stop codon leading to loss of the TpM1 transporter motif as well as the complete second transmembrane domain N	Chrysomela tremula (species)	Chrysomela tremula (species) D	ABCB1	Chrysomela tremula (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 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
ABO histo blood group glycosyltransferase	ABO antigen blood type	Coding, Deletion N	Homo sapiens human - (species) D	Intraspecific	Candidate Gene	Yamamoto F; Hakomori S (1990) Sugar-nucleotide donor specificity of histo-blood group A and B transferases is based on amino acid [...] 1 Additional References Calafell F; Roubinet F; Ramírez-Soriano A (2008) Evolutionary dynamics of the human ABO gene.	GP00000019	ABO P16442	Physiology	1bp deletion (258G) resulting in frameshift N	Homo sapiens human - (species)	Homo sapiens human - (species) D	ABO histo blood group glycosyltransferase	Homo sapiens human - (species)	Published - Accepted by Curator
Acetylcholinesterase (Ace)	Xenobiotic resistance (insecticide)	Coding, Deletion	Bactrocera oleae olive fruit fly - (species) D	Intraspecific	Candidate Gene	Kakani EG; Ioannides IM; Margaritopoulos JT ; et al. (2008) A small deletion in the olive fly acetylcholinesterase gene associated with high levels of organopho[...] 1 Additional References Kakani EG; Bon S; Massoulié J (2011) Altered GPI modification of insect AChE improves tolerance to organophosphate insecticides.	GP00000038	Ace P07140	Physiology	9bp deletion of three glutamine residues at positions 642_644	Bactrocera oleae olive fruit fly - (species)	Bactrocera oleae olive fruit fly - (species) D	Acetylcholinesterase (Ace)	Bactrocera oleae olive fruit fly - (species)	Published - Accepted by Curator
aggrecan	Body size (dwarfism)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Association Mapping	Eberth JE; Graves KT; MacLeod JN ; et al. (2018) Multiple alleles of ACAN associated with chondrodysplastic dwarfism in Miniature horses.	GP00002142	ACAN P16112	Morphology	g.95257458_95257500del ; p.Phe2017-Asp2023del N	Equus caballus horse - (species)	Equus caballus horse - (species) D	aggrecan	Equus caballus horse - (species)	Published - Accepted by Curator
aggrecan	Body size (dwarfism)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Association Mapping	Eberth JE; Graves KT; MacLeod JN ; et al. (2018) Multiple alleles of ACAN associated with chondrodysplastic dwarfism in Miniature horses.	GP00002145	ACAN P16112	Morphology	g.95291270del ; p.Lys82fs N	Equus caballus horse - (species)	Equus caballus horse - (species) D	aggrecan	Equus caballus horse - (species)	Published - Accepted by Curator
Agouti	Coloration (coat; dorso-ventral)	Gene Loss, Deletion N	Peromyscus polionotus oldfield mouse - (species)	Intraspecific	Candidate Gene	Kingsley EP; Manceau M; Wiley CD ; et al. (2009) Melanism in peromyscus is caused by independent mutations in agouti.	GP00000055	Asip Q03288	Morphology	125kb deletion including 5' CDS of Agouti N	Peromyscus polionotus oldfield mouse - (species)	Peromyscus polionotus oldfield mouse - (species)	Agouti	Peromyscus polionotus oldfield mouse - (species)	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 (coat)	Coding, Deletion N	Vulpes vulpes red fox - (species) D	Domesticated	Candidate Gene	Våge DI; Lu D; Klungland H ; et al. (1997) A non-epistatic interaction of agouti and extension in the fox, Vulpes vulpes.	GP00000067	Asip Q03288	Morphology	166 bp deletion in exon 1 N	Vulpes vulpes red fox - (species)	Vulpes vulpes red fox - (species) D	Agouti	Vulpes vulpes red fox - (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 (coat)	5 Mutations:	Peromyscus maniculatus North American deer mouse - (species)	Intraspecific	Association Mapping	Linnen CR; Poh YP; Peterson BK ; et al. (2013) Adaptive evolution of multiple traits through multiple mutations at a single gene. 1 Additional References Barrett RDH; Laurent S; Mallarino R (2019) Linking a mutation to survival in wild mice.	GP00001974	Asip Q03288	Morphology	5 mutations	Peromyscus maniculatus North American deer mouse - (species)	Peromyscus maniculatus North American deer mouse - (species)	Agouti	Peromyscus maniculatus North American deer mouse - (species)	Published - Accepted by Curator
Agouti	Coloration (coat)	Gene Loss, Deletion N	Peromyscus maniculatus North American deer mouse - (species)	Intraspecific	Candidate Gene	Kingsley EP; Manceau M; Wiley CD ; et al. (2009) Melanism in peromyscus is caused by independent mutations in agouti.	GP00001975	Asip Q03288	Morphology	125kb deletion ; recessive mutation N	Peromyscus maniculatus North American deer mouse - (species)	Peromyscus maniculatus North American deer mouse - (species)	Agouti	Peromyscus maniculatus North American deer mouse - (species)	Published - Accepted by Curator
Agouti (ASIP)	Coloration (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 (ASIP)	Coloration (coat)	Coding, Deletion N	D	Intraspecific	Candidate Gene	Miller SM; Guthrie AJ; Harper CK (2016) Single base-pair deletion in ASIP exon 3 associated with recessive black phenotype in impala (Aepyce[...]	GP00001977	Asip Q03288	Morphology	recessive c.174delA was found in all black phenotype sequences ; premature stop codon (239–241 bp) N		D	Agouti (ASIP)		Published - Accepted by Curator
Agouti (ASIP)	Coloration (coat)	Coding, Deletion N	Camelus dromedarius Arabian camel - (species) D	Domesticated	Candidate Gene	Almathen F; Elbir H; Bahbahani H ; et al. (2018) Polymorphisms in MC1R and ASIP Genes are Associated with Coat Color Variation in the Arabian Camel. 1 Additional References Alshanbari F; Castaneda C; Juras R (2019) Comparative FISH-Mapping of MC1R, ASIP, and TYRP1 in New and Old World Camelids and Association Anal[...]	GP00001978	Asip Q03288	Morphology	1-bp deletion at position 23 resulting in frameshift N	Camelus dromedarius Arabian camel - (species)	Camelus dromedarius Arabian camel - (species) D	Agouti (ASIP)	Camelus dromedarius Arabian camel - (species)	Published - Accepted by Curator
AHR2	Xenobiotic resistance (pollution)	Gene Loss, Deletion N	Fundulus heteroclitus mummichog - (species) D	Intraspecific	Association Mapping	Reid NM; Proestou DA; Clark BW ; et al. (2016) The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish. 1 Additional References Clark BW; Matson CW; Jung D (2010) AHR2 mediates cardiac teratogenesis of polycyclic aromatic hydrocarbons and PCB-126 in Atlantic kill[...]	GP00001806	Ahr P30561	Physiology	70 kb deletion that removes parts of the two genes AHR1a and AHR2a N	Fundulus heteroclitus mummichog - (species)	Fundulus heteroclitus mummichog - (species) D	AHR2	Fundulus heteroclitus mummichog - (species)	Published - Accepted by Curator
AHR2	Xenobiotic resistance (pollution)	Gene Loss, Deletion N	Fundulus heteroclitus mummichog - (species) D	Intraspecific	Association Mapping	Reid NM; Proestou DA; Clark BW ; et al. (2016) The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish. 1 Additional References Clark BW; Matson CW; Jung D (2010) AHR2 mediates cardiac teratogenesis of polycyclic aromatic hydrocarbons and PCB-126 in Atlantic kill[...]	GP00001807	Ahr P30561	Physiology	45 kb deletion that removes parts of the two genes AHR1a and AHR2a (from exon 5 of AHR2a to exon 4 of AHR1a) N	Fundulus heteroclitus mummichog - (species)	Fundulus heteroclitus mummichog - (species) D	AHR2	Fundulus heteroclitus mummichog - (species)	Published - Accepted by Curator
AHR2	Xenobiotic resistance (pollution)	Gene Loss, Deletion N	Fundulus heteroclitus mummichog - (species) D	Intraspecific	Association Mapping	Reid NM; Proestou DA; Clark BW ; et al. (2016) The genomic landscape of rapid repeated evolutionary adaptation to toxic pollution in wild fish. 1 Additional References Clark BW; Matson CW; Jung D (2010) AHR2 mediates cardiac teratogenesis of polycyclic aromatic hydrocarbons and PCB-126 in Atlantic kill[...]	GP00001808	Ahr P30561	Physiology	83 kb deletion that removes parts of the two genes AHR1a and AHR2a (from exon 11 of AHR2a to exon 6 of AHR1a) N	Fundulus heteroclitus mummichog - (species)	Fundulus heteroclitus mummichog - (species) D	AHR2	Fundulus heteroclitus mummichog - (species)	Published - Accepted by Curator
AHR2	Xenobiotic resistance (pollution; polychlorinated biphenyls; PCBs)	Coding, Deletion N	Microgadus tomcod Atlantic tomcod - (species) D	Intraspecific	Candidate Gene	Wirgin I; Roy NK; Loftus M ; et al. (2011) Mechanistic basis of resistance to PCBs in Atlantic tomcod from the Hudson River.	GP00001809	Ahr P30561	Physiology	6-bp deletion - (nts 1314 to 1319 in exon 10; TTCCTC) that resulted in a two-amino acid (Phe-Leu) deletion located 43 amino acids downstream of the amino terminal of the AHR2 ligand binding domain N	Microgadus tomcod Atlantic tomcod - (species)	Microgadus tomcod Atlantic tomcod - (species) D	AHR2	Microgadus tomcod Atlantic tomcod - (species)	Published - Accepted by Curator
AHR2	Xenobiotic resistance (pollution)	Gene Loss, Deletion N	Fundulus grandis Gulf killifish - (species) D	Intraspecific	Association Mapping	Oziolor EM; Reid NM; Yair S ; et al. (2019) Adaptive introgression enables evolutionary rescue from extreme environmental pollution.	GP00002669	Ahr P30561	Physiology	70 kb deletion that removes parts of the two genes AHR1a and AHR2a N	Fundulus grandis Gulf killifish - (species)	Fundulus grandis Gulf killifish - (species) D	AHR2	Fundulus grandis Gulf killifish - (species)	Published - Accepted by Curator
alcohol dehydrogenase (Adh)	Xenobiotic resistance (alcohol)	Coding, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Candidate Gene	Gibson JB; Wilks AV; Agrotis A (1992) Molecular relationships between alcohol dehydrogenase null-activity alleles from natural populations[...]	GP00001991	Adh P00334	Physiology	438-bp deletion which removes most of exon 2. Lys to Thr substitution: ACG at the sites 1489--1491 N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	alcohol dehydrogenase (Adh)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
ameloblastin (AMBN)	Tooth absence (no enamel production)	Gene Loss, Deletion N	Gallus gallus chicken - (species) D	Intergeneric or Higher	Candidate Gene	Sire JY; Delgado SC; Girondot M (2008) Hen's teeth with enamel cap: from dream to impossibility.	GP00001934	AMBN Q9NP70	Physiology	synteny of the corresponding region - the gene has been likely deleted from the chicken genome as a consequence of intrachromosomal rearrangements which have probably occurred in the lineage that led to the last common ancestor of modern birds N	Paleosuchus palpebrosus Cuvier's dwarf caiman - (species)	Gallus gallus chicken - (species) D	ameloblastin (AMBN)	Gallus gallus chicken - (species)	Published - Accepted by Curator
Aminopeptidase N (APN)	Xenobiotic resistance (insecticide; Bt Cry2Ac toxin)	Coding, Deletion N	Helicoverpa armigera cotton bollworm - (species) D	Experimental Evolution	Candidate Gene	Yang Y; Zhu YC; Ottea J ; et al. (2010) Molecular characterization and RNA interference of three midgut aminopeptidase N isozymes from Bacil[...]	GP00002463	apn Q9VFX3	Physiology	deletion removing 22 amino acids. The mutant form failed to bind Cry1Ac unlike the full-length susceptible form. N	Helicoverpa armigera cotton bollworm - (species)	Helicoverpa armigera cotton bollworm - (species) D	Aminopeptidase N (APN)	Helicoverpa armigera cotton bollworm - (species)	Published - Accepted by Curator
anthocyanin2 (an2)	Coloration (flowers)	Coding, Deletion N	Petunia axillaris (species) D	Intraspecific	Candidate Gene	Quattrocchio F; Wing J; van der Woude K ; et al. (1999) Molecular analysis of the anthocyanin2 gene of petunia and its role in the evolution of flower color[...]	GP00000089	AN2 A4GRU8	Morphology	1bp deletion at a.a. 127; premature stop N	Petunia integrifolia (species)	Petunia axillaris (species) D	anthocyanin2 (an2)	Petunia axillaris (species)	Published - Accepted by Curator
anthocyanin2 (an2)	Coloration (flowers)	Coding, Deletion N	Petunia axillaris (species) D	Intraspecific	Candidate Gene	Hoballah ME; Gübitz T; Stuurman J ; et al. (2007) Single gene-mediated shift in pollinator attraction in Petunia.	GP00000092	AN2 A4GRU8	Morphology	1bp deletion; premature stop N	Petunia integrifolia (species)	Petunia axillaris (species) D	anthocyanin2 (an2)	Petunia axillaris (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
Aquaporin (AQY1)	Growth rate (environment-dependent)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Candidate Gene	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[...]	GP00001873	AQP1 P29972	Physiology	aquaporin yeast 1 gene on chromosome 12 - A881 deletion renders AQY1 inactive - size of the deletion not indicated in the paper - 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 (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
Aquaporin (AQY2)	Growth rate (environment-dependent)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Candidate Gene	Will JL; Kim HS; Clarke J ; et al. (2010) Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...] 1 Additional References Laizé V; Tacnet F; Ripoche P (2000) Polymorphism of Saccharomyces cerevisiae aquaporins.	GP00001876	AQP1 P29972	Physiology	aquaporin yeast 2 gene on chromosome 11 - deletion of nucleotide G at position 25 (G25) which creates a frameshift 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
Aquaporin (AQY2)	Growth rate (environment-dependent)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Candidate Gene	Will JL; Kim HS; Clarke J ; et al. (2010) Incipient balancing selection through adaptive loss of aquaporins in natural Saccharomyces cerevisia[...]	GP00001877	AQP1 P29972	Physiology	aquaporin yeast 2 gene on chromosome 11 - G528 deletion which creates a frameshift the AQY2 gene - tested in assays - 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
AR	Sensory vibrissae (loss) Penile spine (loss)	Cis-regulatory, Deletion	Homo sapiens human - (species) D	Interspecific	Candidate Gene	McLean CY; Reno PL; Pollen AA ; et al. (2011) Human-specific loss of regulatory DNA and the evolution of human-specific traits.	GP00000102	AR P10275	Morphology Morphology	Enhancer loss	Pan troglodytes chimpanzee - (species)	Homo sapiens human - (species) D	AR	Homo sapiens human - (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
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, 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
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
ATP4A	Digestion (absence of stomach)	Gene Loss, Deletion N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001908	ATP4A P20648	Physiology	Absence of the gene in the genome sequence N	Monodelphis domestica gray short-tailed opossum - (species)	Ornithorhynchus anatinus platypus - (species) D	ATP4A	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
ATP4A	Digestion (absence of stomach)	Gene Loss, Deletion N	Danio rerio zebrafish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001920	ATP4A P20648	Physiology	Absence of the gene in the genome sequence - high synteny N	Gadus morhua Atlantic cod - (species) Gasterosteus aculeatus three-spined stickleback - (species) Oreochromis niloticus Nile tilapia - (species)	Danio rerio zebrafish - (species) D	ATP4A	Danio rerio zebrafish - (species)	Published - Accepted by Curator
ATP4A	Digestion (absence of stomach)	Gene Loss, Deletion N	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001922	ATP4A P20648	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species)	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	ATP4A	Oryzias latipes Japanese medaka - (species) Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
ATP4A	Digestion (absence of stomach)	Gene Loss, Deletion N	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001928	ATP4A P20648	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species) Gasterosteus aculeatus three-spined stickleback - (species)	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	ATP4A	Takifugu rubripes torafugu - (species) Tetraodon nigroviridis spotted green pufferfish - (species)	Published - Accepted by Curator
ATP4B	Digestion (absence of stomach)	3 Mutations: Coding N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001909	ATP4B P51164	Physiology	3 mutations	Monodelphis domestica gray short-tailed opossum - (species) Homo sapiens human - (species)	Ornithorhynchus anatinus platypus - (species) D	ATP4B	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
ATP4B	Digestion (absence of stomach)	Gene Loss, Deletion N	Callorhinchus milii elephant shark - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001916	ATP4B P51164	Physiology	Absence of the gene in the genome sequence N	Scyliorhinus canicula smaller spotted catshark - (species)	Callorhinchus milii elephant shark - (species) D	ATP4B	Callorhinchus milii elephant shark - (species)	Published - Accepted by Curator
ATP4B	Digestion (absence of stomach)	Gene Loss, Deletion N	Danio rerio zebrafish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001921	ATP4B P51164	Physiology	Absence of the gene in the genome sequence - high synteny N	Gadus morhua Atlantic cod - (species) Gasterosteus aculeatus three-spined stickleback - (species) Oreochromis niloticus Nile tilapia - (species)	Danio rerio zebrafish - (species) D	ATP4B	Danio rerio zebrafish - (species)	Published - Accepted by Curator
ATP4B	Digestion (absence of stomach)	Gene Loss, Deletion N	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001923	ATP4B P51164	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species)	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	ATP4B	Oryzias latipes Japanese medaka - (species) Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
ATP4B	Digestion (absence of stomach)	Gene Loss, Deletion N	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001929	ATP4B P51164	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species) Gasterosteus aculeatus three-spined stickleback - (species)	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	ATP4B	Takifugu rubripes torafugu - (species) Tetraodon nigroviridis spotted green pufferfish - (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
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
BADH2	Fragrance	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Candidate Gene	Shi Weiwei; Yang Yi; Chen Saihua ; et al. (2008 ) Discovery of a new fragrance allele and the development of functional markers for the breeding of fr[...] 1 Additional References Kovach MJ; Calingacion MN; Fitzgerald MA (2009) The origin and evolution of fragrance in rice (Oryza sativa L.).	GP00001772	BADH2 Q84LK3	Physiology	7-bp deletion in exon 2 resulting in premature stop codon N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	BADH2	Oryza sativa rice - (species)	Published - Accepted by Curator
BADH2	Fragrance	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Candidate Gene	Kovach MJ; Calingacion MN; Fitzgerald MA ; et al. (2009) The origin and evolution of fragrance in rice (Oryza sativa L.).	GP00001773	BADH2 Q84LK3	Physiology	2-bp deletion in exon 1 resulting in premature stop codon N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	BADH2	Oryza sativa rice - (species)	Published - Accepted by Curator
BADH2	Fragrance	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Candidate Gene	Kovach MJ; Calingacion MN; Fitzgerald MA ; et al. (2009) The origin and evolution of fragrance in rice (Oryza sativa L.).	GP00001778	BADH2 Q84LK3	Physiology	1-bp deletion in exon 10 - causes a frameshift N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	BADH2	Oryza sativa rice - (species)	Published - Accepted by Curator
BBS9 (+ BMPER)	Growth rate	Coding, Deletion N	Sus scrofa domesticus domestic pig - (subspecies) D	Domesticated	Association Mapping	Derks MFL; Lopes MS; Bosse M ; et al. (2018) Balancing selection on a recessive lethal deletion with pleiotropic effects on two neighboring genes[...]	GP00002341	Bbs9 Q811G0	Physiology	212kb deletion resulting in truncated BBS9 protein and recessive loss of neighbor gene expression BMPER N	Sus scrofa domesticus domestic pig - (subspecies)	Sus scrofa domesticus domestic pig - (subspecies) D	BBS9 (+ BMPER)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
BCO2 = beta-carotene oxygenase 2	Carotenoid content (yellow fat)	Coding, Deletion N	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Candidate Gene	Strychalski J; Brym P; Czarnik U ; et al. (2015) A novel AAT-deletion mutation in the coding sequence of the BCO2 gene in yellow-fat rabbits.	GP00002152	BCO2 Q9BYV7	Physiology	AAT-deletion mutation at Asp codon 248 of the BCO2 gene located at the beginning of exon 6 which results in the removal of an Asp N	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	BCO2 = beta-carotene oxygenase 2	Oryctolagus cuniculus rabbit - (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, 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, 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-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001835	TUB2 P02557	Physiology	Del_3539006_3539808 – 802bp deletion of coding exon 4 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001838	TUB2 P02557	Physiology	Del_3539375_3539378 – 3bp deletion in coding exon 4 predicted to cause a frameshift in the ben-1 open reading frame N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001839	TUB2 P02557	Physiology	Del_3539470_3539471 – 1bp deletion in coding exon 4 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001840	TUB2 P02557	Physiology	Del_3539507_3539514 – 7bp deletion N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001841	TUB2 P02557	Physiology	Del_3539559_3539745 – 186 bp deletion in coding exon 4 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001844	TUB2 P02557	Physiology	Del_3539746_3539908 – 162 bp deletion in exon3-4 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001848	TUB2 P02557	Physiology	Del_3540300_3540301 – 1bp deletion in coding exon 2 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001851	TUB2 P02557	Physiology	Del_3540407_3540408 – 1bp deletion in coding exon 2 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001852	TUB2 P02557	Physiology	Del_3540970_3544000 – 3030bp deletion N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001853	TUB2 P02557	Physiology	Del_3541317_3541856 – 539 bp deletion in first coding exon N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (species)	Published - Accepted by Curator
beta-tubulin (ben-1)	Xenobiotic resistance (benzimidazole)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Association Mapping	Hahnel SR; Zdraljevic S; Rodriguez BC ; et al. (2018) Extreme allelic heterogeneity at a Caenorhabditis elegans beta-tubulin locus explains natural resist[...]	GP00001856	TUB2 P02557	Physiology	Del_3541499_3541502 – 3bp deletion in first coding exon N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	beta-tubulin (ben-1)	Caenorhabditis elegans (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
BMP15	Fertility (increased ovulation rate)	Coding, Deletion N	Ovis aries sheep - (species) D	Domesticated	Candidate Gene	Martinez-Royo A; Jurado JJ; Smulders JP ; et al. (2008) A deletion in the bone morphogenetic protein 15 gene causes sterility and increased prolificacy in R[...] 1 Additional References Monteagudo LV; Ponz R; Tejedor MT (2009) A 17 bp deletion in the Bone Morphogenetic Protein 15 (BMP15) gene is associated to increased prolif[...]	GP00002158	Bmp15 Q9Z0L4	Physiology	c.525_541del17 p.Pro45Asnfs*54 N	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	BMP15	Ovis aries sheep - (species)	Published - Accepted by Curator
BNA1	Nicotinid acid metabolism	Gene Loss, Deletion N	[Candida] glabrata (species) D	Interspecific	Candidate Gene	Domergue R; Castaño I; De Las Peñas A ; et al. (2005) Nicotinic acid limitation regulates silencing of Candida adhesins during UTI.	GP00001878	BNA1 P47096	Physiology	Size of the deletion not mentioned in the paper N	Candida albicans (species)	[Candida] glabrata (species) D	BNA1	[Candida] glabrata (species)	Published - Accepted by Curator
BNA2	Nicotinid acid metabolism	Gene Loss, Deletion N	[Candida] glabrata (species) D	Interspecific	Candidate Gene	Domergue R; Castaño I; De Las Peñas A ; et al. (2005) Nicotinic acid limitation regulates silencing of Candida adhesins during UTI.	GP00001879	P47125NULL	Physiology	Size of the deletion not mentioned in the paper N	Candida albicans (species)	[Candida] glabrata (species) D	BNA2	[Candida] glabrata (species)	Published - Accepted by Curator
BNA4	Nicotinid acid metabolism	Gene Loss, Deletion N	[Candida] glabrata (species) D	Interspecific	Candidate Gene	Domergue R; Castaño I; De Las Peñas A ; et al. (2005) Nicotinic acid limitation regulates silencing of Candida adhesins during UTI.	GP00001880	BNA4 P38169	Physiology	Size of the deletion not mentioned in the paper N	Candida albicans (species)	[Candida] glabrata (species) D	BNA4	[Candida] glabrata (species)	Published - Accepted by Curator
BNA5	Nicotinid acid metabolism	Gene Loss, Deletion N	[Candida] glabrata (species) D	Interspecific	Candidate Gene	Domergue R; Castaño I; De Las Peñas A ; et al. (2005) Nicotinic acid limitation regulates silencing of Candida adhesins during UTI.	GP00001881	BNA5 Q05979	Physiology	Size of the deletion not mentioned in the paper N	Candida albicans (species)	[Candida] glabrata (species) D	BNA5	[Candida] glabrata (species)	Published - Accepted by Curator
BNA6	Nicotinid acid metabolism	Gene Loss, Deletion N	[Candida] glabrata (species) D	Interspecific	Candidate Gene	Domergue R; Castaño I; De Las Peñas A ; et al. (2005) Nicotinic acid limitation regulates silencing of Candida adhesins during UTI.	GP00001882	BNA6 P43619	Physiology	Size of the deletion not mentioned in the paper N	Candida albicans (species)	[Candida] glabrata (species) D	BNA6	[Candida] glabrata (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
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
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
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; Bt Cry2Ab toxin)	Coding, Deletion N	Pectinophora gossypiella pink bollworm - (species) D	Experimental Evolution	Candidate Gene	Morin S; Biggs RW; Sisterson MS ; et al. (2003) Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm.	GP00002450	A0A1B0RHM4	Physiology	24-bp deletion in putative exon 21 causing the loss of eight amino acid residues 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; Bt Cry2Ab toxin)	Coding, Deletion N	Pectinophora gossypiella pink bollworm - (species) D	Experimental Evolution	Candidate Gene	Morin S; Biggs RW; Sisterson MS ; et al. (2003) Three cadherin alleles associated with resistance to Bacillus thuringiensis in pink bollworm.	GP00002451	A0A1B0RHM4	Physiology	126-bp deletion spanning a putative intron 15/exon 16 splice site that introduces a premature stop codon and causes loss of the final 929 amino acid residues. 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; Bt Cry1Ac toxin)	Coding, Deletion	Ostrinia furnacalis Asian corn borer - (species) D	Intraspecific	Candidate Gene	Jin T; Chang X; Gatehouse AM ; et al. (2014) Downregulation and mutation of a Cadherin gene associated with Cry1Ac resistance in the Asian Corn B[...] 1 Additional References Jurat-Fuentes JL; Heckel DG; Ferré J (2021) Mechanisms of Resistance to Insecticidal Proteins from Bacillus thuringiensis.	GP00002464	A0A1B0RHM4	Physiology	MPR-r2 has a 26-amino acid residue deletion in the TBR which results in reduced binding of Cry1Ac compared to the MPR from the susceptible strain.	Ostrinia furnacalis Asian corn borer - (species)	Ostrinia furnacalis Asian corn borer - (species) D	cadherin	Ostrinia furnacalis Asian corn borer - (species)	Published - Accepted by Curator
cardinal	Coloration (eyes)	Coding, Deletion N	Tribolium castaneum red flour beetle - (species) D	Domesticated	Candidate Gene	Shirai Y; Daimon T (2020) Mutations in cardinal are responsible for the red-1 and peach eye color mutants of the red flour bee[...]	GP00002666	cd Q9VCW2	Morphology	1-bp deletion in exon 6 that causes a frameshift mutation. Amino acid residues near the C-terminal end of the haem peroxidase domain are thus disrupted. N	Tribolium castaneum red flour beetle - (species)	Tribolium castaneum red flour beetle - (species) D	cardinal	Tribolium castaneum red flour beetle - (species)	Published - Accepted by Curator
cathepsin E	Digestion (absence of stomach)	2 Mutations: Coding N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001910	CTSE P14091	Physiology	2 mutations	Monodelphis domestica gray short-tailed opossum - (species) Homo sapiens human - (species)	Ornithorhynchus anatinus platypus - (species) D	cathepsin E	Ornithorhynchus anatinus platypus - (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
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
CMAH	Blood type (feline ABC)	Coding, Deletion N	Felis catus domestic cat - (species) D	Intraspecific	Candidate Gene	Omi T; Nakazawa S; Udagawa C ; et al. (2016) Molecular Characterization of the Cytidine Monophosphate-N-Acetylneuraminic Acid Hydroxylase (CMAH) [...] 2 Additional References Kehl A; Mueller E; Giger U (2019) CMAH genotyping survey for blood types A, B and C (AB) in purpose-bred cats. Kehl A; Heimberger K; Langbein-Detsch I (2018) Molecular characterization of blood type A, B, and C (AB) in domestic cats and a CMAH genotyping sch[...]	GP00002165	Cmah Q61419	Physiology	c.1322delT p.Leu441* N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	CMAH	Felis catus domestic cat - (species)	Published - Accepted by Curator
cortex	Coloration (wing)	Cis-regulatory, Deletion	Heliconius melpomene postman butterfly - (species) D	Domesticated	Association Mapping	Hanly JJ; Livraghi L; Heryanto C ; et al. (2022) A large deletion at the cortex locus eliminates butterfly wing patterning.	GP00001805	cort Q960N3	Morphology	78-kb deletion in the 5′ region of the cortex gene that includes a facultative 5′UTR exon detected in larval wing disk transcriptomes. Phenotypic effect confirmed by CRISPR mutagenesis of this exon. The ivory deletion causes the loss of 1 of 2 promoters.	Heliconius melpomene postman butterfly - (species)	Heliconius melpomene postman butterfly - (species) D	cortex	Heliconius melpomene postman butterfly - (species)	Published - Accepted by Curator
Cpm1	Xenobiotic resistance (insecticide; toxin produced by Bacillus sphaericus)	Coding, Deletion N	Culex quinquefasciatus southern house mosquito - (species) D	Intraspecific	Candidate Gene	Guo QY; Cai QX; Yan JP ; et al. (2013) Single nucleotide deletion of cqm1 gene results in the development of resistance to Bacillus sphaeri[...] 1 Additional References Darboux I; Pauchet Y; Castella C (2002) Loss of the membrane anchor of the target receptor is a mechanism of bioinsecticide resistance.	GP00002552	Q95WY5	Physiology	one-nucleotide deletion which results in a premature stop codon and leads to production of a truncated protein. N	Culex quinquefasciatus southern house mosquito - (species)	Culex quinquefasciatus southern house mosquito - (species) D	Cpm1	Culex quinquefasciatus southern house mosquito - (species)	Published - Accepted by Curator
CS	Plant secondary metabolite (pungency)	Cis-regulatory, Deletion N	Capsicum annuum (species) D	Domesticated	Candidate Gene	Kim S; Park M; Yeom SI ; et al. (2014) Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum speci[...] 1 Additional References Stewart C; Kang BC; Liu K (2005) The Pun1 gene for pungency in pepper encodes a putative acyltransferase.	GP00001447	csy1 Q09UW1	Physiology	Large 2.5 kb deletion spanning 1.8 kb of the putative promoter and 0.7 kb of the first exon was observed in the C. annuum Bellpeppers N	Capsicum frutescens (species)	Capsicum annuum (species) D	CS	Capsicum annuum (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
CYP6ER1	Xenobiotic resistance (insecticide; imidacloprid)	Coding, Deletion	Nilaparvata lugens brown planthopper - (species) D	Intraspecific	Candidate Gene	Zimmer CT; Garrood WT; Singh KS ; et al. (2018) Neofunctionalization of Duplicated P450 Genes Drives the Evolution of Insecticide Resistance in the [...]	GP00002473	cyp6er1 A0A2I8B6P1	Physiology	Deletion of Pro377. This provides a more moderate but significant 4.5-fold increase in resistance.	Nilaparvata lugens brown planthopper - (species)	Nilaparvata lugens brown planthopper - (species) D	CYP6ER1	Nilaparvata lugens brown planthopper - (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
cytochrome c oxidase (COX7A)	Fertility Lifespan Locomotor activity	Coding, Deletion	Drosophila simulans (species) D	Intraspecific	Candidate Gene	Melvin RG; Katewa SD; Ballard JW (2008) A candidate complex approach to study functional mitochondrial DNA changes: sequence variation and q[...] 1 Additional References Ballard JW; Melvin RG (2011) Early life benefits and later life costs of a two amino acid deletion in Drosophila simulans.	GP00001980	COX7A Q9VHS2	Physiology Physiology Physiology	Deletion of two amino acids (Trp85 and Val86). The deletion occurs in subunit 7A of the mitochondrial electron trans-port chain protein cytochrome c oxidase (cox7A). The nuclear encoded cox7A gene produces a protein that isimported into the mitochondrion and forms a subunit of complexIV (cytochrome c oxidase) of the electron transport chain.	Drosophila simulans (species)	Drosophila simulans (species) D	cytochrome c oxidase (COX7A)	Drosophila simulans (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
dentin sialophosphoprotein (DSPP)	Tooth absence (no enamel production)	Coding, Deletion N	Gallus gallus chicken - (species) D	Intergeneric or Higher	Candidate Gene	Sire JY; Delgado SC; Girondot M (2008) Hen's teeth with enamel cap: from dream to impossibility.	GP00001936	DSPP Q9NZW4	Physiology	synteny of the corresponding region - only the N-terminal region of DSPP is present in the genome - 1-bp deletion in exon one leading to a reading frame shift were this sequence to be translated N	Paleosuchus palpebrosus Cuvier's dwarf caiman - (species)	Gallus gallus chicken - (species) D	dentin sialophosphoprotein (DSPP)	Gallus gallus chicken - (species)	Published - Accepted by Curator
desatF	Pheromone production	Cis-regulatory, Deletion	Drosophila (subgenus) D	Interspecific	Candidate Gene	Shirangi TR; Dufour HD; Williams TM ; et al. (2009) Rapid evolution of sex pheromone-producing enzyme expression in Drosophila.	GP00000220	desatF A7DZ97	Physiology	Inactivation of DSX-binding site	Drosophila takahashii (species)	Drosophila (subgenus) D	desatF	Drosophila (subgenus)	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 1-2 (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, Deletion	Iochroma calycinum (species) D	Intraspecific	Candidate Gene	Coburn RA; Griffin RH; Smith SD (2015) Genetic basis for a rare floral mutant in an Andean species of Solanaceae.	GP00000224	DFRA P51102	Morphology	33bp (11 a.a) deletion In coding sequence	Iochroma calycinum (species)	Iochroma calycinum (species) D	dihydroflavonol reductase (DFR)	Iochroma calycinum (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
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
Dvl2	Organ size (tail)	Coding, Deletion N	Canis lupus familiaris dog - (subspecies) D	Domesticated	Association Mapping	Mansour TA; Lucot K; Konopelski SE ; et al. (2018) Whole genome variant association across 100 dogs identifies a frame shift mutation in DISHEVELLED 2 [...]	GP00002110	DVL2 O14641	Morphology	single base deletion found on CFA 5(g.32195043_32195044del) that is homozygous in the three screw tail breeds - predicted to lead to a frameshift mutation and cause a premature stop codon that truncates the translated protein by 23 amino acids (p.Pro684LeufsX26) - 26 altered amino acids are predicted to be present in the highly conserved C-terminus of the mutant protein. N	Canis lupus familiaris dog - (subspecies)	Canis lupus familiaris dog - (subspecies) D	Dvl2	Canis lupus familiaris dog - (subspecies)	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 (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/ 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
EDAR	Scales (reduced)	Coding, Deletion N	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002359	EDAR Q9UNE0	Morphology	Several deletions in the EDAR1 coding region. N	Danio rerio zebrafish - (species)	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	EDAR	Sinocyclocheilus anshuiensis (species) Sinocyclocheilus grahami (species) Sinocyclocheilus rhinocerous (species)	Published - Accepted by Curator
EDAR	Scales (reduced)	Coding, Deletion N	Sinocyclocheilus anshuiensis (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002360	EDAR Q9UNE0	Morphology; Physiology	Deletion of a large part of the EDAR2 coding region. N	Sinocyclocheilus grahami (species)	Sinocyclocheilus anshuiensis (species) D	EDAR	Sinocyclocheilus anshuiensis (species)	Published - Accepted by Curator
enamelin (ENAM)	Tooth absence (no enamel production)	Gene Loss, Deletion N	Gallus gallus chicken - (species) D	Intergeneric or Higher	Candidate Gene	Sire JY; Delgado SC; Girondot M (2008) Hen's teeth with enamel cap: from dream to impossibility.	GP00001935	ENAM Q9NRM1	Physiology	synteny of the corresponding region - the gene has been likely deleted from the chicken genome as a consequence of intrachromosomal rearrangements which have probably occurred in the lineage that led to the last common ancestor of modern birds N	Paleosuchus palpebrosus Cuvier's dwarf caiman - (species)	Gallus gallus chicken - (species) D	enamelin (ENAM)	Gallus gallus chicken - (species)	Published - Accepted by Curator
enamelin (ENAM)	Tooth absence (no enamel production)	Coding, Deletion N	Eubalaena glacialis North Atlantic right whale - (species) D Megaptera novaeangliae humpback whale - (species) D Eschrichtius robustus grey whale - (species) D Caperea marginata pygmy right whale - (species) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Murphy WJ ; et al. (2009) Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of[...] 1 Additional References Meredith RW; Gatesy J; Cheng J (2011) Pseudogenization of the tooth gene enamelysin (MMP20) in the common ancestor of extant baleen whales[...]	GP00001939	ENAM Q9NRM1	Physiology	1-bp deletion. Various frameshift mutations were found in the distinct species. N	Cetacea whales - (order)	Eubalaena glacialis North Atlantic right whale - (species) D Megaptera novaeangliae humpback whale - (species) D Eschrichtius robustus grey whale - (species) D Caperea marginata pygmy right whale - (species) D	enamelin (ENAM)	Eubalaena glacialis North Atlantic right whale - (species) Megaptera novaeangliae humpback whale - (species) Eschrichtius robustus grey whale - (species) Caperea marginata pygmy right whale - (species)	Published - Accepted by Curator
enamelin (ENAM)	Tooth composition (no enamel production)	2 Mutations: Coding Deletion N	Kogia sima dwarf sperm whale - (species) D Kogia breviceps pygmy sperm whale - (species) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Murphy WJ ; et al. (2009) Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of[...] 1 Additional References Meredith RW; Gatesy J; Cheng J (2011) Pseudogenization of the tooth gene enamelysin (MMP20) in the common ancestor of extant baleen whales[...]	GP00001942	ENAM Q9NRM1	Physiology	2 mutations	Physeter catodon sperm whale - (species)	Kogia sima dwarf sperm whale - (species) D Kogia breviceps pygmy sperm whale - (species) D	enamelin (ENAM)	Kogia sima dwarf sperm whale - (species) Kogia breviceps pygmy sperm whale - (species)	Published - Accepted by Curator
enamelin (ENAM)	Tooth composition (no enamel production)	3 Mutations: Coding N	Orycteropus afer aardvark - (species) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Murphy WJ ; et al. (2009) Molecular decay of the tooth gene Enamelin (ENAM) mirrors the loss of enamel in the fossil record of[...]	GP00001943	ENAM Q9NRM1	Physiology	3 mutations	Elephantulus rufescens East African long-eared elephant shrew - (species)	Orycteropus afer aardvark - (species) D	enamelin (ENAM)	Orycteropus afer aardvark - (species)	Published - Accepted by Curator
Epithiospecifier protein (ESP)	Plant secondary metabolite (glucosinolate) Herbivore resistance	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Lambrix V; Reichelt M; Mitchell-Olds T ; et al. (2001) The Arabidopsis epithiospecifier protein promotes the hydrolysis of glucosinolates to nitriles and i[...]	GP00000279	ESP Q8RY71	Physiology Physiology	deletion of 124 bases that eliminates a splice site and 100 nucleotides of the ORF N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	Epithiospecifier protein (ESP)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
ERG3	Xenobiotic resistance (drug)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Experimental Evolution	Association Mapping	Gerstein AC; Lo DS; Otto SP (2012) Parallel genetic changes and nonparallel gene-environment interactions characterize the evolution of[...]	GP00001756	ERG3 P32353	Physiology	1-bp deletion in line 34 A980- N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	ERG3	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
ERG3	Xenobiotic resistance (drug)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Experimental Evolution	Association Mapping	Gerstein AC; Lo DS; Otto SP (2012) Parallel genetic changes and nonparallel gene-environment interactions characterize the evolution of[...]	GP00001757	ERG3 P32353	Physiology	60-bp deletion at position 253 in line 35 N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	ERG3	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
ERG5	Xenobiotic resistance (drug)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Experimental Evolution	Association Mapping	Gerstein AC; Lo DS; Otto SP (2012) Parallel genetic changes and nonparallel gene-environment interactions characterize the evolution of[...]	GP00000287	ERG5 P54781	Physiology	60bp deletion N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	ERG5	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
eve	Developmental time	Cis-regulatory, Deletion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Candidate Gene	Palsson A; Wesolowska N; Reynisdóttir S ; et al. (2014) Naturally occurring deletions of hunchback binding sites in the even-skipped stripe 3+7 enhancer.	GP00001986	eve P06602	Physiology	72bp deletion that removes one of the hb protein-binding sites in the stripe 3+7 enhancer of eve. The deletion also removes half of a putative slp1 protein-binding site.	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	eve	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
FGF5	Hair length (length)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Candidate Gene	Drögemüller C; Rüfenacht S; Wichert B ; et al. (2007) Mutations within the FGF5 gene are associated with hair length in cats. 1 Additional References Kehler JS; David VA; Schäffer AA (2007 Sep-Oct) Four independent mutations in the feline fibroblast growth factor 5 gene determine the long-haired p[...]	GP00000311	Fgf5 P15656	Morphology	c.474delT resulting in frameshift N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	FGF5	Felis catus domestic cat - (species)	Published - Accepted by Curator
FGF5	Hair length	Coding, Deletion N	Equus asinus ass - (species) D	Domesticated	Candidate Gene	Legrand R; Tiret L; Abitbol M (2014) Two recessive mutations in FGF5 are associated with the long-hair phenotype in donkeys.	GP00001369	Fgf5 P15656	Morphology	c.433_434delAT frameshift deletion leading to a stop codon at position 159 N	Equus asinus ass - (species)	Equus asinus ass - (species) D	FGF5	Equus asinus ass - (species)	Published - Accepted by Curator
FGF5	Hair length	Coding, Deletion N	Mesocricetus auratus golden hamster - (species) D	Domesticated	Candidate Gene	Yoshizawa Y; Wada K; Shimoi G ; et al. (2015) A 1-bp deletion in Fgf5 causes male-dominant long hair in the Syrian hamster.	GP00002173	Fgf5 P15656	Morphology	c.546delG p.Arg184GlyfsX6 N	Mesocricetus auratus golden hamster - (species)	Mesocricetus auratus golden hamster - (species) D	FGF5	Mesocricetus auratus golden hamster - (species)	Published - Accepted by Curator
FGF5	Hair length	Coding, Deletion	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Dierks C; Mömke S; Philipp U ; et al. (2013) Allelic heterogeneity of FGF5 mutations causes the long-hair phenotype in dogs. 1 Additional References Cadieu E; Neff MW; Quignon P (2009) Coat variation in the domestic dog is governed by variants in three genes.	GP00002177	Fgf5 P15656	Morphology	c.556_571del16 p.A186Tfs*69	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	FGF5	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
FGF5	Hair length	Coding, Deletion N	Mus musculus house mouse - (species) D	Domesticated	Candidate Gene	Hébert JM; Rosenquist T; Götz J ; et al. (1994) FGF5 as a regulator of the hair growth cycle: evidence from targeted and spontaneous mutations. 1 Additional References Sundberg JP; Rourk MH; Boggess D (1997) Angora mouse mutation: altered hair cycle, follicular dystrophy, phenotypic maintenance of skin graf[...]	GP00002441	Fgf5 P15656	Morphology	Deletion which extends at least 2kb upstream of the Fgf5 translational start site and terminates at the end of the first exon or beginning of the first intron. N	Mus musculus house mouse - (species)	Mus musculus house mouse - (species) D	FGF5	Mus musculus house mouse - (species)	Published - Accepted by Curator
FGF5	Hair length	Coding, Deletion N	Mus musculus house mouse - (species) D	Domesticated	Candidate Gene	Mizuno S; Iijima S; Okano T ; et al. (2011) Retrotransposon-mediated Fgf5(go-Utr) mutant mice with long pelage hair.	GP00002442	Fgf5 P15656	Morphology	Deletion of a 9.3-kb region in the Fgf5 gene including exon 3 and its 5' and 3' flanking sequences. The genomic deletion site also shows insertion of a 498-bp early transposon element long terminal repeat. N	Mus musculus house mouse - (species)	Mus musculus house mouse - (species) D	FGF5	Mus musculus house mouse - (species)	Published - Accepted by Curator
Fgfr1a1	Scales (loss)	Coding, Deletion N	Cyprinus carpio common carp - (species) D	Domesticated	Candidate Gene	Rohner N; Bercsényi M; Orbán L ; et al. (2009) Duplication of fgfr1 permits Fgf signaling to serve as a target for selection during domestication.	GP00000312	fgfr1a Q90Z00	Morphology	deletion of 310 bp N	Cyprinus carpio common carp - (species)	Cyprinus carpio common carp - (species) D	Fgfr1a1	Cyprinus carpio common carp - (species)	Published - Accepted by Curator
Flavonoid 3'-hydroxylase (F3'H)	Coloration (flowers; pubescence; seeds)	Coding, Deletion N	Glycine soja (species) D	Intraspecific	Candidate Gene	Guo Y; Qiu LJ (2013) Allele-specific marker development and selection efficiencies for both flavonoid 3'-hydroxylase and [...]	GP00000315	CYP75B1 Q9SD85	Morphology	-1bp at +973 resulting in premature stop codon N	Glycine max soybean - (species)	Glycine soja (species) D	Flavonoid 3'-hydroxylase (F3'H)	Glycine soja (species)	Published - Accepted by Curator
Flavonoid 3'-hydroxylase (F3'H)	Coloration (flowers; pubescence; seeds)	Coding, Deletion N	Glycine soja (species) D	Intraspecific	Candidate Gene	Guo Y; Qiu LJ (2013) Allele-specific marker development and selection efficiencies for both flavonoid 3'-hydroxylase and [...]	GP00000316	CYP75B1 Q9SD85	Morphology	-1bp at +1164 resulting in premature stop codon N	Glycine max soybean - (species)	Glycine soja (species) D	Flavonoid 3'-hydroxylase (F3'H)	Glycine soja (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, 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
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-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
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
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
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, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Le Corre V; Roux F; Reboud X (2002) DNA polymorphism at the FRIGIDA gene in Arabidopsis thaliana: extensive nonsynonymous variation is c[...]	GP00000360	FRI P0DH90	Physiology	1bp deletion at 1487 in exon 1 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, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Shindo C; Aranzana MJ; Lister C ; et al. (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis.	GP00000366	FRI P0DH90	Physiology	deletion; E430* 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, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Shindo C; Aranzana MJ; Lister C ; et al. (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis.	GP00000367	FRI P0DH90	Physiology	deletion of 6 amino acids; LQLDKE422-427*	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, Deletion	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Shindo C; Aranzana MJ; Lister C ; et al. (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis.	GP00000368	FRI P0DH90	Physiology	deletion aa 1-12	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, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Shindo C; Aranzana MJ; Lister C ; et al. (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis.	GP00000369	FRI P0DH90	Physiology	deletion resulting in S121* 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, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Shindo C; Aranzana MJ; Lister C ; et al. (2005) Role of FRIGIDA and FLOWERING LOCUS C in determining variation in flowering time of Arabidopsis.	GP00000370	FRI P0DH90	Physiology	deletion; AF375-6* 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
FUT2	ABO antigen blood type	Coding, Deletion N	Homo sapiens human - (species) D	Intraspecific	Candidate Gene	Kelly RJ; Rouquier S; Giorgi D ; et al. (1995) Sequence and expression of a candidate for the human Secretor blood group alpha(1,2)fucosyltransfera[...] 1 Additional References Pang H; Fujitani N; Soejima M (2000) Two distinct Alu-mediated deletions of the human ABO-secretor (FUT2) locus in Samoan and Bangladeshi[...]	GP00000379	FUT2 Q10981	Physiology	9.3 kb deletion mediated by recombination between Alu sequences N	Homo sapiens human - (species)	Homo sapiens human - (species) D	FUT2	Homo sapiens human - (species)	Published - Accepted by Curator
FUT2	ABO antigen blood type	Coding, Deletion N	Homo sapiens human - (species) D	Intraspecific	Candidate Gene	Kelly RJ; Rouquier S; Giorgi D ; et al. (1995) Sequence and expression of a candidate for the human Secretor blood group alpha(1,2)fucosyltransfera[...] 2 Additional References Pang H; Fujitani N; Soejima M (2000) Two distinct Alu-mediated deletions of the human ABO-secretor (FUT2) locus in Samoan and Bangladeshi[...] Koda Y; Soejima M; Johnson PH (2000) An Alu-mediated large deletion of the FUT2 gene in individuals with the ABO-Bombay phenotype.	GP00000380	FUT2 Q10981	Physiology	10 kb deletion mediated by recombination between Alu sequences N	Homo sapiens human - (species)	Homo sapiens human - (species) D	FUT2	Homo sapiens human - (species)	Published - Accepted by Curator
GADD45G	Brain development	Cis-regulatory, Deletion	Pan troglodytes chimpanzee - (species) D	Interspecific	Association Mapping	McLean CY; Reno PL; Pollen AA ; et al. (2011) Human-specific loss of regulatory DNA and the evolution of human-specific traits.	GP00000384	GADD45G O95257	Morphology	Enhancer loss	Homo sapiens human - (species)	Pan troglodytes chimpanzee - (species) D	GADD45G	Pan troglodytes chimpanzee - (species)	Published - Accepted by Curator
gastrin	Digestion (absence of stomach)	Gene Loss, Deletion N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001914	GAST P01350	Physiology	Absence of the gene in the genome sequence - high synteny N	Monodelphis domestica gray short-tailed opossum - (species)	Ornithorhynchus anatinus platypus - (species) D	gastrin	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
GDF6	Limb morphology (hindlimb;skeleton)	Cis-regulatory, Deletion	Homininae (subfamily) D	Intergeneric or Higher	Candidate Gene	Indjeian VB; Kingman GA; Jones FC ; et al. (2016) Evolving New Skeletal Traits by cis-Regulatory Changes in Bone Morphogenetic Proteins.	GP00000389	GDF6 Q6KF10	Morphology	Loss of a limb specific enhancer, the deletion is 5.6 kb	Homo sapiens human - (species)	Homininae (subfamily) D	GDF6	Homininae (subfamily)	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
GLABROUS1	Trichome density (leaf)	Gene Loss, Deletion N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Candidate Gene	Hauser MT; Harr B; Schlötterer C (2001) Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular a[...] 1 Additional References Hauser MT; Harr B; Schlötterer C (2001) Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular a[...]	GP00001238	GL1 P27900	Morphology	gene loss: -4.7KB at position -948bp N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	GLABROUS1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
GLABROUS1	Trichome density (leaf)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Hauser MT; Harr B; Schlötterer C (2001) Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular a[...] 1 Additional References Hauser MT; Harr B; Schlötterer C (2001) Trichome distribution in Arabidopsis thaliana and its close relative Arabidopsis lyrata: molecular a[...]	GP00001241	GL1 P27900	Morphology	-1bp at position 203 causing premature stop N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	GLABROUS1	Arabidopsis thaliana thale cress - (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
GPRC6A	Cell signaling (membrane receptor activity)	Coding, Deletion	Homo sapiens human - (species) D	Intraspecific	Candidate Gene	Jørgensen S; Have CT; Underwood CR ; et al. (2017) Genetic Variations in the Human G Protein-coupled Receptor Class C, Group 6, Member A (GPRC6A) Contr[...]	GP00001670	GPRC6A Q5T6X5	Physiology	KGRKLP>KGRK-Y in the third intracellular loop (ICL3) with surface expression and function greatly reduced	Homo sapiens human - (species)	Homo sapiens human - (species) D	GPRC6A	Homo sapiens human - (species)	Published - Accepted by Curator
GPRC6A	Cell signaling (membrane receptor activity)	Coding, Deletion N	Homo sapiens human - (species) D	Intraspecific	Candidate Gene	Jørgensen S; Have CT; Underwood CR ; et al. (2017) Genetic Variations in the Human G Protein-coupled Receptor Class C, Group 6, Member A (GPRC6A) Contr[...]	GP00001671	GPRC6A Q5T6X5	Physiology	KGRKLP>KGK--Y in the third intracellular loop (ICL3) responsible for the intracellular retention and lack of function N	Homo sapiens human - (species)	Homo sapiens human - (species) D	GPRC6A	Homo sapiens human - (species)	Published - Accepted by Curator
Green-sensitive opsin (RH2)	Color vision	Gene Loss, Deletion N	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002354	opn1mw1 Q9W6A5	Physiology	Rh2-1 coding sequence absent from the full genome sequence of the three Sinocyclocheilus species N	Danio rerio zebrafish - (species)	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	Green-sensitive opsin (RH2)	Sinocyclocheilus anshuiensis (species) Sinocyclocheilus grahami (species) Sinocyclocheilus rhinocerous (species)	Published - Accepted by Curator
Green-sensitive opsin (RH2)	Color vision	Gene Loss, Deletion N	Sinocyclocheilus anshuiensis (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002355	opn1mw4 Q9W6A6	Physiology	Rh2-4 coding sequence absent from the full genome sequence of S. anshuiensis but present in the genome of Sinocyclocheilus rhinocerous and S. grahami N	Sinocyclocheilus grahami (species)	Sinocyclocheilus anshuiensis (species) D	Green-sensitive opsin (RH2)	Sinocyclocheilus anshuiensis (species)	Published - Accepted by Curator
Green-sensitive opsin (RH2)	Color vision	Gene Loss, Deletion N	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002356	opn1mw2 Q8AYM8	Physiology	Rh2-2 coding sequence absent from the full genome sequence of the three Sinocyclocheilus species N	Danio rerio zebrafish - (species)	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	Green-sensitive opsin (RH2)	Sinocyclocheilus anshuiensis (species) Sinocyclocheilus grahami (species) Sinocyclocheilus rhinocerous (species)	Published - Accepted by Curator
Growth Hormone Receptor (GHR)	Body size (dwarfism)	Coding, Deletion N	Gallus gallus chicken - (species) D	Domesticated	Association Mapping	Agarwal SK; Cogburn LA; Burnside J (1994) Dysfunctional growth hormone receptor in a strain of sex-linked dwarf chicken: evidence for a mutati[...]	GP00002189	GHR P10912	Morphology	deletion of 1773 bp in the 3' end of the coding region N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Growth Hormone Receptor (GHR)	Gallus gallus chicken - (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
Ha_BtR	Xenobiotic resistance (insecticide; Bt Cry1Ac toxin)	Coding, Deletion N	Helicoverpa armigera cotton bollworm - (species) D	Intraspecific	Candidate Gene	Xu X; Yu L; Wu Y (2005) Disruption of a cadherin gene associated with resistance to Cry1Ac {delta}-endotoxin of Bacillus thu[...] 2 Additional References Zhao J; Jin L; Yang Y (2010) Diverse cadherin mutations conferring resistance to Bacillus thuringiensis toxin Cry1Ac in Helicover[...] Yang Y; Chen H; Wu S (2006) Identification and molecular detection of a deletion mutation responsible for a truncated cadherin o[...]	GP00000427	ABCA2 A0A0S0G7V0	Physiology	10kb deletion 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)	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
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
Hd1	Flowering time	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Candidate Gene	Takahashi Y; Teshima KM; Yokoi S ; et al. (2009) Variations in Hd1 proteins, Hd3a promoters, and Ehd1 expression levels contribute to diversity of fl[...]	GP00001722	HD1 Q9FDX8	Physiology	1bp deletion at position 606 ; presumptive protein truncated N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Hd1	Oryza sativa rice - (species)	Published - Accepted by Curator
Hd1	Flowering time	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Candidate Gene	Takahashi Y; Teshima KM; Yokoi S ; et al. (2009) Variations in Hd1 proteins, Hd3a promoters, and Ehd1 expression levels contribute to diversity of fl[...]	GP00001723	HD1 Q9FDX8	Physiology	1bp deletion at position 321 ; presumptive protein truncated N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Hd1	Oryza sativa rice - (species)	Published - Accepted by Curator
Hd1	Flowering time	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Candidate Gene	Takahashi Y; Teshima KM; Yokoi S ; et al. (2009) Variations in Hd1 proteins, Hd3a promoters, and Ehd1 expression levels contribute to diversity of fl[...]	GP00001724	HD1 Q9FDX8	Physiology	4bp deletion at position 1089 ; presumptive protein truncated N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Hd1	Oryza sativa rice - (species)	Published - Accepted by Curator
Heading Date 1 (HD1)	Flowering time	Coding, Deletion N	Sorghum virgatum (species) D	Domesticated	Association Mapping	Liu H; Liu H; Zhou L ; et al. (2015) Parallel Domestication of the Heading Date 1 Gene in Cereals.	GP00001408	CO Q39057	Physiology	5bp deletion in the coding sequence leading to gene frameshift N	Sorghum bicolor sorghum - (species)	Sorghum virgatum (species) D	Heading Date 1 (HD1)	Sorghum virgatum (species)	Published - Accepted by Curator
Heading Date 1 (HD1)	Flowering time	Coding, Deletion N	Sorghum (genus) D	Interspecific	Association Mapping	Liu H; Liu H; Zhou L ; et al. (2015) Parallel Domestication of the Heading Date 1 Gene in Cereals.	GP00001409	CO Q39057	Physiology	80bp deletion in first exon leading to gene frameshift N	Sorghum (genus)	Sorghum (genus) D	Heading Date 1 (HD1)	Sorghum (genus)	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
HM2 = HC toxin reductase (HCTR)	Pathogen resistance	Coding, Deletion N	Zea mays (species) D	Domesticated	Candidate Gene	Chintamanani S; Multani DS; Ruess H ; et al. (2008) Distinct mechanisms govern the dosage-dependent and developmentally regulated resistance conferred b[...]	GP00000482	hm2 B8QWA3	Physiology	deletion from exon 2 (nucleotide 420) to beyond the confines of the hm2 gene into an unknown genomic region. N	Zea mays (species)	Zea mays (species) D	HM2 = HC toxin reductase (HCTR)	Zea mays (species)	Published - Accepted by Curator
HMGA2	Body size (dwarfism) Cranio-facial morphology	Coding, Deletion N	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Association Mapping	Carneiro M; Hu D; Archer J ; et al. (2017) Dwarfism and Altered Craniofacial Development in Rabbits Is Caused by a 12.1 kb Deletion at the HMGA[...]	GP00001675	HMGA2 P52926	Morphology Morphology	deletion of 12.1 kb overlapping the promoter region and first three exons leading to inactivation of the gene. The 5'-end of this deletion overlaps a CSINE2 element N	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	HMGA2	Oryctolagus cuniculus rabbit - (species)	Published - Accepted by Curator
Hox gene cluster	Body plan (number of segments)	Gene Loss, Deletion N	Hypsibius dujardini (species) D Paramacrobiotus richtersi (species) D Milnesium tardigradum (species) D	Intergeneric or Higher	Candidate Gene	Smith FW; Boothby TC; Giovannini I ; et al. (2016) The Compact Body Plan of Tardigrades Evolved by the Loss of a Large Body Region.	GP00001946	Antp P02833	Morphology	The three genes Antp Ubx AbdA are missing in the genome sequences of the three tardigrades. This loss is ancient so difficult to evaluate whether the three genes were lost due to a single mutational event or due to successive mutations. The Hox cluster is disorganized in the H. dujardini genome. N	Drosophila melanogaster fruit fly - (species)	Hypsibius dujardini (species) D Paramacrobiotus richtersi (species) D Milnesium tardigradum (species) D	Hox gene cluster	Hypsibius dujardini (species) Paramacrobiotus richtersi (species) Milnesium tardigradum (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
Hps4	Coloration (albinism)	Coding, Deletion N	Ictalurus punctatus channel catfish - (species) D	Intraspecific	Association Mapping	Li Y; Geng X; Bao L ; et al. (2017) A deletion in the Hermansky-Pudlak syndrome 4 (Hps4) gene appears to be responsible for albinism in [...]	GP00002122	Hps4 Q99KG7	Morphology	A 99‐bp deletion was identified spanning intron 2 and exon 3 junction of the Hps4 gene N	Ictalurus punctatus channel catfish - (species)	Ictalurus punctatus channel catfish - (species) D	Hps4	Ictalurus punctatus channel catfish - (species)	Published - Accepted by Curator
HvbHLH1	Coloration	Coding, Deletion N	Hordeum vulgare (species) D	Domesticated	Association Mapping	Cockram J; White J; Zuluaga DL ; et al. (2010) Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genom[...]	GP00000493	bHLH1 E5FCX3	Morphology	16bp deletion resulting in premature stop codon N	Hordeum vulgare (species)	Hordeum vulgare (species) D	HvbHLH1	Hordeum vulgare (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
Indian hedgehog (IHH)	Limb size (legs)	Gene Loss, Deletion N	Gallus gallus chicken - (species) D	Domesticated	Association Mapping	Jin S; Zhu F; Wang Y ; et al. (2016) Deletion of Indian hedgehog gene causes dominant semi-lethal Creeper trait in chicken.	GP00002194	IHH Q98938	Morphology	11,896 bp large deletion region (chr7: 21,798,705-21,810,600) covering the entire Indian hedgehog (IHH) gene N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Indian hedgehog (IHH)	Gallus gallus chicken - (species)	Published - Accepted by Curator
Inhibitor of DNA binding 3 (id3)	Lifespan	Coding, Deletion	Nothobranchius pienaari (species) D	Interspecific	Association Mapping	Reichwald K; Petzold A; Koch P ; et al. (2015) Insights into Sex Chromosome Evolution and Aging from the Genome of a Short-Lived Fish.	GP00001677	ID3 Q02535	Physiology	One evolutionarily conserved aa (E) is deleted in id3 C-terminus	Nothobranchius rachovii bluefin notho - (species)	Nothobranchius pienaari (species) D	Inhibitor of DNA binding 3 (id3)	Nothobranchius pienaari (species)	Published - Accepted by Curator
Kit (type III receptor protein-tyrosine kinase)	Coloration (coat)	Cis-regulatory, Deletion	Felis catus domestic cat - (species) D	Domesticated	Association Mapping	David VA; Menotti-Raymond M; Wallace AC ; et al. (2014) Endogenous retrovirus insertion in the KIT oncogene determines white and white spotting in domestic [...]	GP00000519	Kit P05532	Morphology	Excision of the full-length FERV1 elevement leaving the two LTR residues	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	Kit (type III receptor protein-tyrosine kinase)	Felis catus domestic cat - (species)	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)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Haase B; Brooks SA; Tozaki T ; et al. (2009) Seven novel KIT mutations in horses with white coat colour phenotypes.	GP00002202	Kit P05532	Morphology	c.1126_1129delGAAC p.E376FfsX3 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)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Haase B; Brooks SA; Tozaki T ; et al. (2009) Seven novel KIT mutations in horses with white coat colour phenotypes.	GP00002205	Kit P05532	Morphology	c.2193delG p.T732QfsX9 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)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Haase B; Rieder S; Tozaki T ; et al. (2011) Five novel KIT mutations in horses with white coat colour phenotypes.	GP00002212	Kit P05532	Morphology	c.2392_2445del p.H798_N815del 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)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Haase B; Jagannathan V; Rieder S ; et al. (2015) A novel KIT variant in an Icelandic horse with white-spotted coat colour.	GP00002216	Kit P05532	Morphology	c.2369delC p.Ala790Glufs*20 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)	Cis-regulatory, Deletion	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Capomaccio S; Milanesi M; Nocelli C ; et al. (2017) Splicing site disruption in the KIT gene as strong candidate for white dominant phenotype in an Ital[...]	GP00002218	Kit P05532	Morphology	g.77736559C>T (putative splicing mutation)	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, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Dürig N; Jude R; Holl H ; et al. (2017) Whole genome sequencing reveals a novel deletion variant in the KIT gene in horses with white spotte[...]	GP00002219	Kit P05532	Morphology	g.77;740;239_77;742;136del1898insTATAT ~1.9-kb deletion 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)	Coding, Deletion	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Hoban R; Castle K; Hamilton N ; et al. (2018) Novel KIT variants for dominant white in the Australian horse population.	GP00002221	Kit P05532	Morphology	c.2536delA p.Ser846Valfs*15	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, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Hug P; Jude R; Henkel J ; et al. (2019) A novel KIT deletion variant in a German Riding Pony with white-spotting coat colour phenotype.	GP00002223	Kit P05532	Morphology	g.79;579;925-79;581;197del 1273bp deletion 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)	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 (type III receptor protein-tyrosine kinase)	Coloration (coat ; white-spotting)	Coding, Deletion N	Camelus dromedarius Arabian camel - (species) D	Domesticated	Candidate Gene	Holl H; Isaza R; Mohamoud Y ; et al. (2017) A Frameshift Mutation in KIT is Associated with White Spotting in the Arabian Camel.	GP00002229	Kit P05532	Morphology	c.1842delG p.M614IfsX5 N	Camelus dromedarius Arabian camel - (species)	Camelus dromedarius Arabian camel - (species) D	Kit (type III receptor protein-tyrosine kinase)	Camelus dromedarius Arabian camel - (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
KRT71	Hair type (curly and hairless)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated	Association Mapping	Gandolfi B; Outerbridge CA; Beresford LG ; et al. (2010) The naked truth: Sphynx and Devon Rex cat breed mutations in KRT71.	GP00001730	Krt71 Q9R0H5	Morphology	eight base pair deletion mutation in exon one of the keratin 71 (KRT71) c.334delTGTGCCCA p.Met93AsnfsX14 N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	KRT71	Bos taurus cattle - (species)	Published - Accepted by Curator
KRT75L4	Feathers	Coding, Deletion	Gallus gallus chicken - (species) D	Domesticated	Association Mapping	Guo X; Li YQ; Wang MS ; et al. (2018) A parallel mechanism underlying frizzle in domestic chickens.	GP00002334	KRT75L4 A0A1L1RKR4	Morphology	15bp deletion resulting in loss of 5 conserved amino-acids	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	KRT75L4	Gallus gallus chicken - (species)	Published - Accepted by Curator
lanosterol c14 demethylase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Caenorhabditis elegans (species) D	Intergeneric or Higher	Candidate Gene	Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001951	CYP51A1 Q16850	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Caenorhabditis elegans (species) D	lanosterol c14 demethylase	Caenorhabditis elegans (species)	Published - Accepted by Curator
lanosterol c14 demethylase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intergeneric or Higher	Candidate Gene	Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001952	CYP51A1 Q16850	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Drosophila melanogaster fruit fly - (species) D	lanosterol c14 demethylase	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
lanosterol synthase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intergeneric or Higher	Candidate Gene	Kurzchalia TV; Ward S (2003) Why do worms need cholesterol? 1 Additional References Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001949	LSS P48449	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Drosophila melanogaster fruit fly - (species) D	lanosterol synthase	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
lanosterol synthase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Caenorhabditis elegans (species) D	Intergeneric or Higher	Candidate Gene	Kurzchalia TV; Ward S (2003) Why do worms need cholesterol? 1 Additional References Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001950	LSS P48449	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Caenorhabditis elegans (species) D	lanosterol synthase	Caenorhabditis elegans (species)	Published - Accepted by Curator
Ldia2 - Diaphanous-related formin	Shell chirality (coiling)	Coding, Deletion N	Lymnaea stagnalis great pond snail - (species) D	Intraspecific	Association Mapping	Davison A; McDowell GS; Holden JM ; et al. (2016) Formin Is Associated with Left-Right Asymmetry in the Pond Snail and the Frog.	GP00000538	DIAPH1 O60610	Morphology	1bp deletion resulting in frame-shift (pseudogenization) N	Lymnaea stagnalis great pond snail - (species)	Lymnaea stagnalis great pond snail - (species) D	Ldia2 - Diaphanous-related formin	Lymnaea stagnalis great pond snail - (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
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
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
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 (coat)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated	Candidate Gene	Klungland H; Våge DI; Gomez-Raya L ; et al. (1995) The role of melanocyte-stimulating hormone (MSH) receptor in bovine coat color determination. 1 Additional References Joerg H; Fries HR; Meijerink E (1996) Red coat color in Holstein cattle is associated with a deletion in the MSHR gene.	GP00000571	MC1R Q01726	Morphology	1 bp deletion at 104: frameshift and premature stop at amino acid 156 N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	MC1R	Bos taurus cattle - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Puma yagouaroundi jaguarundi - (species) D	Intraspecific	Candidate Gene	Eizirik E; Yuhki N; Johnson WE ; et al. (2003) Molecular genetics and evolution of melanism in the cat family.	GP00000581	MC1R Q01726	Morphology	Deletion of aa 95-102	Puma yagouaroundi jaguarundi - (species)	Puma yagouaroundi jaguarundi - (species) D	MC1R	Puma yagouaroundi jaguarundi - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion N	Mus musculus house mouse - (species) D	Domesticated	Candidate Gene	Robbins LS; Nadeau JH; Johnson KR ; et al. (1993) Pigmentation phenotypes of variant extension locus alleles result from point mutations that alter MS[...]	GP00000582	MC1R Q01726	Morphology	1bp deletion at 183; frameshift & premature stop N	Mus musculus house mouse - (species)	Mus musculus house mouse - (species) D	MC1R	Mus musculus house mouse - (species)	Published - Accepted by Curator
MC1R	Coloration (feathers)	Coding, Deletion	Numida meleagris helmeted guineafowl - (species) D	Domesticated	Candidate Gene	Vidal O; Araguas RM; Fernández E ; et al. (2010) Melanism in guinea fowl (Numida meleagris) is associated with a deletion of Phenylalanine-256 in the[...]	GP00000587	MC1R Q01726	Morphology	Phe256del	Numida meleagris helmeted guineafowl - (species)	Numida meleagris helmeted guineafowl - (species) D	MC1R	Numida meleagris helmeted guineafowl - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Candidate Gene	Fontanesi L; Tazzoli M; Beretti F ; et al. (2006) Mutations in the melanocortin 1 receptor (MC1R) gene are associated with coat colours in the domesti[...]	GP00000588	MC1R Q01726	Morphology	6bp in-frame del of 94-95	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	MC1R	Oryctolagus cuniculus rabbit - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Candidate Gene	Fontanesi L; Tazzoli M; Beretti F ; et al. (2006) Mutations in the melanocortin 1 receptor (MC1R) gene are associated with coat colours in the domesti[...]	GP00000589	MC1R Q01726	Morphology	30bp in-frame del of 102-111	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	MC1R	Oryctolagus cuniculus rabbit - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Candidate Gene	Fontanesi L; Scotti E; Colombo M ; et al. (2010) A composite six bp in-frame deletion in the melanocortin 1 receptor (MC1R) gene is associated with t[...]	GP00000590	MC1R Q01726	Morphology	6bp in frame deletion c.[124G>A;125_130del6] + L44T (homozygous state in Japanese, Rhinelander and Dutch tricolour rabbits )	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	MC1R	Oryctolagus cuniculus rabbit - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Panthera onca jaguar - (species) D	Intraspecific	Candidate Gene	Eizirik E; Yuhki N; Johnson WE ; et al. (2003) Molecular genetics and evolution of melanism in the cat family.	GP00000593	MC1R Q01726	Morphology	Deletion of aa 101-105 and L106T	Panthera onca jaguar - (species)	Panthera onca jaguar - (species) D	MC1R	Panthera onca jaguar - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Sciurus carolinensis gray squirrel - (species) D Sciurus niger fox squirrel - (species) D	Intraspecific	Candidate Gene	McRobie H; Thomas A; Kelly J (2009 Nov-Dec) The genetic basis of melanism in the gray squirrel (Sciurus carolinensis). 1 Additional References McRobie HR; Moncrief ND; Mundy NI (2019) Multiple origins of melanism in two species of North American tree squirrel (Sciurus).	GP00000596	MC1R Q01726	Morphology	Deletion of 8 a.a.	Sciurus carolinensis gray squirrel - (species) Sciurus niger fox squirrel - (species)	Sciurus carolinensis gray squirrel - (species) D Sciurus niger fox squirrel - (species) D	MC1R	Sciurus carolinensis gray squirrel - (species) Sciurus niger fox squirrel - (species)	Published - Accepted by Curator
MC1R	Coloration (feathers)	Coding, Deletion	Falco eleonorae (species) D	Intraspecific	Candidate Gene	Gangoso L; Grande JM; Ducrest AL ; et al. (2011) MC1R-dependent, melanin-based colour polymorphism is associated with cell-mediated response in the E[...]	GP00000603	MC1R Q01726	Morphology	Deletion of 3 a.a.	Falco eleonorae (species)	Falco eleonorae (species) D	MC1R	Falco eleonorae (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion	Felis catus domestic cat - (species) D	Domesticated	Candidate Gene	Gustafson NA; Gandolfi B; Lyons LA (2017) Not another type of potato: MC1R and the russet coloration of Burmese cats.	GP00001330	MC1R Q01726	Morphology	3bp deletion at c.439-441del (p.Phe146del)	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	MC1R	Felis catus domestic cat - (species)	Published - Accepted by Curator
MC1R	Coloration (coat)	Coding, Deletion N	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Dürig N; Letko A; Lepori V ; et al. (2018) Two MC1R loss-of-function alleles in cream-coloured Australian Cattle Dogs and white Huskies.	GP00002301	MC1R Q01726	Morphology	2-bp deletion in the coding sequence c.816_817delCT N	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	MC1R	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
Melanophilin (MLPH)	Coloration (coat)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated	Candidate Gene	Li W; Sartelet A; Tamma N ; et al. (2016) Reverse genetic screen for loss-of-function mutations uncovers a frameshifting deletion in the melan[...]	GP00000642	Mlph Q91V27	Morphology	10bp deletion in exon1 ; c.87_96del p.Glu32Aspfs*1 N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Melanophilin (MLPH)	Bos taurus cattle - (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 (coat)	Coding, Deletion N	Neovison vison American mink - (species) D	Domesticated	Candidate Gene	Cirera S; Markakis MN; Christensen K ; et al. (2013) New insights into the melanophilin (MLPH) gene controlling coat color phenotypes in American mink.	GP00000646	Mlph Q91V27	Morphology	deletion including intron 7 and exon 8 N	Neovison vison American mink - (species)	Neovison vison American mink - (species) D	Melanophilin (MLPH)	Neovison vison American mink - (species)	Published - Accepted by Curator
Melanophilin (MLPH)	Coloration (coat)	Coding, Deletion N	Oryctolagus (genus) D	Domesticated	Candidate Gene	Fontanesi L; Scotti E; Allain D ; et al. (2014) A frameshift mutation in the melanophilin gene causes the dilute coat colour in rabbit (Oryctolagus [...]	GP00000648	Mlph Q91V27	Morphology	1bp deletion resulting in frameshift N	Oryctolagus (genus)	Oryctolagus (genus) D	Melanophilin (MLPH)	Oryctolagus (genus)	Published - Accepted by Curator
Melanophilin (MLPH)	Coloration (coat)	Coding, Deletion N	Oryctolagus cuniculus rabbit - (species) D	Domesticated	Candidate Gene	Lehner S; Gähle M; Dierks C ; et al. (2013) Two-exon skipping within MLPH is associated with coat color dilution in rabbits.	GP00002332	Mlph Q91V27	Morphology	c.585delG p.L195LfsX123* N	Oryctolagus cuniculus rabbit - (species)	Oryctolagus cuniculus rabbit - (species) D	Melanophilin (MLPH)	Oryctolagus cuniculus rabbit - (species)	Published - Accepted by Curator
metallothionein (MtnA)	Oxidative stress resistance	Cis-regulatory, Deletion	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Association Mapping	Catalán A; Glaser-Schmitt A; Argyridou E ; et al. (2016) An Indel Polymorphism in the MtnA 3' Untranslated Region Is Associated with Gene Expression Variatio[...]	GP00002018	MtnA P04357	Physiology	49bp deletion in the MtnA 3'UTR	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	metallothionein (MtnA)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Microphtalmia-associated transcription factor	Coloration (coat)	Cis-regulatory, Deletion	Canis lupus familiaris dog - (subspecies) D	Domesticated	Association Mapping	Karlsson EK; Baranowska I; Wade CM ; et al. (2007) Efficient mapping of mendelian traits in dogs through genome-wide association. 1 Additional References Baranowska Körberg I; Sundström E; Meadows JR (2014) A simple repeat polymorphism in the MITF-M promoter is a key regulator of white spotting in dogs.	GP00000657	Mitf Q08874	Morphology	g.21836232_21836427ins>del - this SINE-insertion variant is the first of three possible regulatory variants described by Karlsson et al. (2007). Its genomic location and description were kindly provided by Professor Claire Wade in August 2018. OMIA 000214-9615	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	Microphtalmia-associated transcription factor	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
Microphtalmia-associated transcription factor	Coloration (feathers)	Coding, Deletion N	Coturnix japonica Japanese quail - (species) D	Domesticated	Candidate Gene	Minvielle F; Bed'hom B; Coville JL ; et al. (2010) The "silver" Japanese quail and the MITF gene: causal mutation, associated traits and homology with [...] 1 Additional References Mochii M; Ono T; Matsubara Y (1998) Spontaneous transdifferentiation of quail pigmented epithelial cell is accompanied by a mutation in [...]	GP00000660	Mitf Q08874	Morphology	2bp deletion N	Coturnix japonica Japanese quail - (species)	Coturnix japonica Japanese quail - (species) D	Microphtalmia-associated transcription factor	Coturnix japonica Japanese quail - (species)	Published - Accepted by Curator
Microphtalmia-associated transcription factor	Coloration (coat)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Hauswirth R; Haase B; Blatter M ; et al. (2012) Mutations in MITF and PAX3 cause "splashed white" and other white spotting phenotypes in horses.	GP00002322	Mitf Q08874	Morphology	c.519_523delGTGTC p.C174Sfs*20 N	Equus caballus horse - (species)	Equus caballus horse - (species) D	Microphtalmia-associated transcription factor	Equus caballus horse - (species)	Published - Accepted by Curator
Microphtalmia-associated transcription factor	Coloration (coat)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Henkel J; Lafayette C; Brooks SA ; et al. (2019) Whole-genome sequencing reveals a large deletion in the MITF gene in horses with white spotted coat [...]	GP00002324	Mitf Q08874	Morphology	~63-kb deletion spanning exons 6-9 N	Equus caballus horse - (species)	Equus caballus horse - (species) D	Microphtalmia-associated transcription factor	Equus caballus horse - (species)	Published - Accepted by Curator
Microphtalmia-associated transcription factor	Coloration (coat)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Candidate Gene	Magdesian KG; Tanaka J; Bellone RR (2020) A De Novo MITF Deletion Explains a Novel Splashed White Phenotype in an American Paint Horse.	GP00002325	Mitf Q08874	Morphology	8.7 kb deletion N	Equus caballus horse - (species)	Equus caballus horse - (species) D	Microphtalmia-associated transcription factor	Equus caballus horse - (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
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
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
Mpv17	Coloration (albinism; iridophores)	Coding, Deletion N	Sinocyclocheilus anshuiensis (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002358	mpv17 Q5TZ51	Morphology; Physiology	Deletion which removes 16 amino acids in a conserved region. The Mpv17 mutant in zebrafish displays a strong reduction of iridophores throughout larval and adult stages. N	Sinocyclocheilus grahami (species)	Sinocyclocheilus anshuiensis (species) D	Mpv17	Sinocyclocheilus anshuiensis (species)	Published - Accepted by Curator
MRC2	Muscular mass Tail shape (crooked ; defect)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated	Association Mapping	Fasquelle C; Sartelet A; Li W ; et al. (2009) Balancing selection of a frame-shift mutation in the MRC2 gene accounts for the outbreak of the Croo[...] 2 Additional References Sartelet A; Klingbeil P; Franklin CK (2012) Allelic heterogeneity of Crooked Tail Syndrome: result of balancing selection? Druet T; Ahariz N; Cambisano N (2014) Selection in action: dissecting the molecular underpinnings of the increasing muscle mass of Belgian[...]	GP00002264	MRC2 Q9UBG0	Physiology Morphology	c.2904-2905delAG p.Gly934X N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	MRC2	Bos taurus cattle - (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
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
MYB1	Coloration (flower)	Coding, Deletion N	Ipomoea purpurea common morning-glory - (species) D	Intraspecific	Candidate Gene	Chang SM; Lu Y; Rausher MD (2005) Neutral evolution of the nonbinding region of the anthocyanin regulatory gene Ipmyb1 in Ipomoea.	GP00001458	myb1 Q4QS21	Morphology	2 deletions; 6-bp and 19-bp long; the larger produces a frameshift and a premature stop N	Ipomoea purpurea common morning-glory - (species)	Ipomoea purpurea common morning-glory - (species) D	MYB1	Ipomoea purpurea common morning-glory - (species)	Published - Accepted by Curator
MYB1	Coloration (flowers; seeds; stems)	Coding, Deletion N	Ipomoea nil Japanese morning glory - (species) D	Domesticated	Candidate Gene	Morita Y; Saitoh M; Hoshino A ; et al. (2006) Isolation of cDNAs for R2R3-MYB, bHLH and WDR transcriptional regulators and identification of c and[...]	GP00002089	myb1 Q4QS21	Morphology	frameshift mutation caused by a 2 bp deletion N	Ipomoea nil Japanese morning glory - (species)	Ipomoea nil Japanese morning glory - (species) D	MYB1	Ipomoea nil Japanese morning glory - (species)	Published - Accepted by Curator
myosin heavy chain 16 (MYH16)	Masticatory muscles	Coding, Deletion N	Homo sapiens human - (species) D	Intergeneric or Higher	Candidate Gene	Stedman HH; Kozyak BW; Nelson A ; et al. (2004) Myosin gene mutation correlates with anatomical changes in the human lineage.	GP00000683	MYH16 Q9H6N6	Morphology	2bp deletion at codon 660 N	Pan troglodytes chimpanzee - (species)	Homo sapiens human - (species) D	myosin heavy chain 16 (MYH16)	Homo sapiens human - (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, Deletion N	Ovis aries sheep - (species) D	Domesticated	Candidate Gene	Boman IA; Klemetsdal G; Blichfeldt T ; et al. (2009) A frameshift mutation in the coding region of the myostatin gene (MSTN) affects carcass conformation[...]	GP00000693	MSTN O14793	Morphology	1bp deletion resulting in a premature stop codon at position 320 N	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	Myostatin (MSTN = GDF8)	Ovis aries sheep - (species)	Published - Accepted by Curator
Myostatin (MSTN = GDF8)	Racing performance	Coding, Deletion N	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Mosher DS; Quignon P; Bustamante CD ; et al. (2007) A mutation in the myostatin gene increases muscle mass and enhances racing performance in heterozygo[...]	GP00000697	MSTN O14793	Morphology; Physiology	2bp deletion in the third exon c.939_940delTG p.C313* N	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	Myostatin (MSTN = GDF8)	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
nAChR	Xenobiotic resistance (insecticide; spinosad)	Coding, Deletion N	Plutella xylostella diamondback moth - (species) D	Intraspecific	Candidate Gene	Rinkevich FD; Chen M; Shelton AM ; et al. (2010) Transcripts of the nicotinic acetylcholine receptor subunit gene Pxylα6 with premature stop codons a[...]	GP00002652	CHRNA6 Q15825	Physiology	transcripts with premature stop codons N	Plutella xylostella diamondback moth - (species)	Plutella xylostella diamondback moth - (species) D	nAChR	Plutella xylostella diamondback moth - (species)	Published - Accepted by Curator
nAChR	Xenobiotic resistance (insecticide; spinosad)	Coding, Deletion N	Plutella xylostella diamondback moth - (species) D	Experimental Evolution	Candidate Gene	Wang J; Wang X; Lansdell SJ ; et al. (2016) A three amino acid deletion in the transmembrane domain of the nicotinic acetylcholine receptor α6 s[...]	GP00002653	CHRNA6 Q15825	Physiology	a three amino acid (3-aa) deletion in the fourth transmembrane domain (TM4) of the nAChR α6 subunit N	Plutella xylostella diamondback moth - (species)	Plutella xylostella diamondback moth - (species) D	nAChR	Plutella xylostella diamondback moth - (species)	Published - Accepted by Curator
nAChR	Xenobiotic resistance (insecticide; spinosad)	Coding, Deletion N	Rhyzopertha dominica lesser grain borer - (species) D	Intraspecific	Candidate Gene	Wang HT; Tsai CL; Chen ME (2018) Nicotinic acetylcholine receptor subunit α6 associated with spinosad resistance in Rhyzopertha domin[...]	GP00002654	CHRNA6 Q15825	Physiology	Three mutations were found in the resistant strain compared with the susceptible one: (1) a 181-bp fragment truncated at the N-terminus resulting in the appearance of a premature stop codon - (2) one missing bp at the position 997 causing a frame-shift mutation and (3) an 87-bp fragment truncated in the TM2 region. N	Rhyzopertha dominica lesser grain borer - (species)	Rhyzopertha dominica lesser grain borer - (species) D	nAChR	Rhyzopertha dominica lesser grain borer - (species)	Published - Accepted by Curator
neurogenin 3	Digestion (absence of stomach)	Gene Loss, Deletion N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001915	NEUROG3 Q9Y4Z2	Physiology	Absence of the gene in the genome sequence - Neurogenin-3 is a transcription factor whose activity is required for the specification of gastric epithelial cell identity - Deficiency of this factor results in considerably smaller stomachs and absence of gastrin-secreting G cells: somatostatin-secreting D cells and glucagon-secreting A cells N	Monodelphis domestica gray short-tailed opossum - (species)	Ornithorhynchus anatinus platypus - (species) D	neurogenin 3	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
Not much yang (Nmy)	Sex determination (sex ratio distortion)	Coding, Deletion	Drosophila simulans (species) D	Intraspecific	Candidate Gene	Tao Y; Masly JP; Araripe L ; et al. (2007) A sex-ratio meiotic drive system in Drosophila simulans. I: an autosomal suppressor. 1 Additional References Tao Y; Araripe L; Kingan SB (2007) A sex-ratio meiotic drive system in Drosophila simulans. II: an X-linked distorter.	GP00001970		Physiology	Loss of one of the inverted repeats that is present in the wild-type Dsim\Nmy locus and loss of most of the sequence located between the inverted repeats (except for a 93bp element in reverse orientation).	Drosophila simulans (species)	Drosophila simulans (species) D	Not much yang (Nmy)	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
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, Deletion N	Melanochromis auratus (species) D	Intraspecific	Candidate Gene	Kratochwil CF; Urban S; Meyer A (2019) Genome of the Malawi golden cichlid fish (Melanochromis auratus) reveals exon loss of oca2 in an ame[...]	GP00001955	Oca2 Q62052	Morphology	deletion covering a total of 5.4kb including exon 2 and parts of the flanking introns 1 and 2 N	Melanochromis auratus (species)	Melanochromis auratus (species) D	Oca2	Melanochromis auratus (species)	Published - Accepted by Curator
Oca2	Coloration (albinism)	Coding, Deletion N	Carassius auratus goldfish - (species) D	Domesticated	Candidate Gene	Kon T; Omori Y; Fukuta K ; et al. (2020) The Genetic Basis of Morphological Diversity in Domesticated Goldfish.	GP00002352	Oca2 Q62052	Morphology	1-bp deletion creating a frameshift and a truncated protein (519 amino acids instead of 805). In oca2S ohnolog on chromosome LG31. N	Carassius auratus goldfish - (species)	Carassius auratus goldfish - (species) D	Oca2	Carassius auratus goldfish - (species)	Published - Accepted by Curator
OCYMENE SYNTHASE (OS)	Fragrance (floral terpenoid volatiles; E- beta-ocimene)	Coding, Deletion N	Erythranthe verbenacea (species) D	Interspecific	Candidate Gene	Peng F; Byers KJRP; Bradshaw HD (2017) Less is more: Independent loss-of-function OCIMENE SYNTHASE alleles parallel pollination syndrome di[...]	GP00001762	TPS02 P0CJ43	Physiology	large deletion from the third exon to the last exon N	Erythranthe lewisii (species)	Erythranthe verbenacea (species) D	OCYMENE SYNTHASE (OS)	Erythranthe verbenacea (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
opsin - (SWS1)	Color vision	Coding, Deletion N	Mysticeti baleen whales - (suborder) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000756	OPN1SW P03999	Physiology	4bp frameshift deletion in exon 1 of SWS1 that results in a premature stop codon N	Cetacea whales - (order)	Mysticeti baleen whales - (suborder) D	opsin - (SWS1)	Mysticeti baleen whales - (suborder)	Published - Accepted by Curator
opsin - (SWS1)	Color vision (loss of violet-range sensitivity)	Coding, Deletion N	Sciurus carolinensis gray squirrel - (species) D	Intergeneric or Higher	Candidate Gene	Carvalho Ldos S; Cowing JA; Wilkie SE ; et al. (2006) Shortwave visual sensitivity in tree and flying squirrels reflects changes in lifestyle.	GP00000758	OPN1SW P03999	Physiology	6bp deletion (residues 77-78) + 1bp frameshift deletion N	Sciurus carolinensis gray squirrel - (species)	Sciurus carolinensis gray squirrel - (species) D	opsin - (SWS1)	Sciurus carolinensis gray squirrel - (species)	Published - Accepted by Curator
opsin - (SWS1)	Color vision (loss of violet-range sensitivity)	Coding, Deletion	Sciurus carolinensis gray squirrel - (species) D	Intergeneric or Higher	Candidate Gene	Carvalho Ldos S; Cowing JA; Wilkie SE ; et al. (2006) Shortwave visual sensitivity in tree and flying squirrels reflects changes in lifestyle.	GP00000759	OPN1SW P03999	Physiology	9bp deletion (residues 93-95)	Sciurus carolinensis gray squirrel - (species)	Sciurus carolinensis gray squirrel - (species) D	opsin - (SWS1)	Sciurus carolinensis gray squirrel - (species)	Published - Accepted by Curator
opsin - (SWS1)	Color vision (violet-shift)	Coding, Deletion	Lepidopus fitchi (species) D	Intergeneric or Higher	Candidate Gene	Tada T; Altun A; Yokoyama S (2009) Evolutionary replacement of UV vision by violet vision in fish.	GP00001704	OPN1SW P03999	Physiology	deletion of Phe86 (3-bp deletion)	Actinopterygii ray-finned fishes - (superclass)	Lepidopus fitchi (species) D	opsin - (SWS1)	Lepidopus fitchi (species)	Published - Accepted by Curator
opsin - rhodopsin (LWS)	Color vision	Coding, Deletion N	Balaenopteridae rorquals - (family) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000771	OPN1LW P04000	Physiology	22bp deletion including transciption start N	Cetacea whales - (order)	Balaenopteridae rorquals - (family) D	opsin - rhodopsin (LWS)	Balaenopteridae rorquals - (family)	Published - Accepted by Curator
opsin - rhodopsin (LWS)	Color vision	Coding, Deletion N	Kogia breviceps pygmy sperm whale - (species) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000772	OPN1LW P04000	Physiology	44bp frameshift deletion 9 + possibly GT to CT splice site mutation N	Cetacea whales - (order)	Kogia breviceps pygmy sperm whale - (species) D	opsin - rhodopsin (LWS)	Kogia breviceps pygmy sperm whale - (species)	Published - Accepted by Curator
opsin - rhodopsin (LWS)	Color vision	Coding, Deletion N	Physeter catodon sperm whale - (species) D	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000773	OPN1LW P04000	Physiology	1bp + 28bp frameshift deletions N	Cetacea whales - (order)	Physeter catodon sperm whale - (species) D	opsin - rhodopsin (LWS)	Physeter catodon sperm whale - (species)	Published - Accepted by Curator
opsin - rhodopsin (LWS)	Color vision	Gene Loss, Deletion N	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	Interspecific	Candidate Gene	Yang J; Chen X; Bai J ; et al. (2016) The Sinocyclocheilus cavefish genome provides insights into cave adaptation.	GP00002353	OPN1LW P04000	Physiology	Lws2 coding sequence absent from the full genome sequence N	Danio rerio zebrafish - (species)	Sinocyclocheilus anshuiensis (species) D Sinocyclocheilus grahami (species) D Sinocyclocheilus rhinocerous (species) D	opsin - rhodopsin (LWS)	Sinocyclocheilus anshuiensis (species) Sinocyclocheilus grahami (species) Sinocyclocheilus rhinocerous (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
P2RY5	Hair type (woolly)	Coding, Deletion N	Homo sapiens human - (species) D	Intraspecific	Association Mapping	Shimomura Y; Wajid M; Ishii Y ; et al. (2008) Disruption of P2RY5, an orphan G protein-coupled receptor, underlies autosomal recessive woolly hair[...]	GP00001734	LPAR6 P43657	Morphology	2 deletions - one at position 172-175 delAACT and one at position 177 delG - cause frameshift at codon 58 (PTC +31) N	Homo sapiens human - (species)	Homo sapiens human - (species) D	P2RY5	Homo sapiens human - (species)	Published - Accepted by Curator
PAP1	Coloration (anthocyanin accumulation under high-light and low-temperature stress)	Gene Loss, Deletion N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Ilk N; Ding J; Ihnatowicz A ; et al. (2015) Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...] 1 Additional References Teng S; Keurentjes J; Bentsink L (2005) Sucrose-specific induction of anthocyanin biosynthesis in Arabidopsis requires the MYB75/PAP1 gene.	GP00001232	MYB75 Q9FE25	Physiology	several deletions in the promoter; first intron; second exon and 3' UTR region (putative loss of function) N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	PAP1	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
peel-1	Hybrid incompatibility	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	Seidel HS; Ailion M; Li J ; et al. (2011) A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion i[...] 1 Additional References Seidel HS; Rockman MV; Kruglyak L (2008) Widespread genetic incompatibility in C. elegans maintained by balancing selection.	GP00001321	peel-1 G5EGC6	Physiology	1bp deletion creating a frameshift starting at amino acid position 43. Total length of wild-type protein is 174 amino acids. N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	peel-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
peel-1/zeel-1	Hybrid incompatibility	Gene Loss, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	Seidel HS; Rockman MV; Kruglyak L (2008) Widespread genetic incompatibility in C. elegans maintained by balancing selection. 1 Additional References Seidel HS; Ailion M; Li J (2011) A novel sperm-delivered toxin causes late-stage embryo lethality and transmission ratio distortion i[...]	GP00001320	peel-1 G5EGC6	Physiology	19kb deletion N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	peel-1/zeel-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
pepsinogen A	Digestion (absence of stomach)	Gene Loss, Deletion N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001911	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Monodelphis domestica gray short-tailed opossum - (species)	Ornithorhynchus anatinus platypus - (species) D	pepsinogen A	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
pepsinogen A1	Digestion (absence of stomach)	Gene Loss, Deletion N	Danio rerio zebrafish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001917	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Gadus morhua Atlantic cod - (species) Gasterosteus aculeatus three-spined stickleback - (species) Oreochromis niloticus Nile tilapia - (species)	Danio rerio zebrafish - (species) D	pepsinogen A1	Danio rerio zebrafish - (species)	Published - Accepted by Curator
pepsinogen A1	Digestion (absence of stomach)	Gene Loss, Deletion N	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001924	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species)	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	pepsinogen A1	Oryzias latipes Japanese medaka - (species) Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
pepsinogen A1	Digestion (absence of stomach)	Gene Loss, Deletion N	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001930	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species) Gasterosteus aculeatus three-spined stickleback - (species)	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	pepsinogen A1	Takifugu rubripes torafugu - (species) Tetraodon nigroviridis spotted green pufferfish - (species)	Published - Accepted by Curator
pepsinogen A2	Digestion (absence of stomach)	Gene Loss, Deletion N	Danio rerio zebrafish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001918	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Gadus morhua Atlantic cod - (species) Gasterosteus aculeatus three-spined stickleback - (species) Oreochromis niloticus Nile tilapia - (species)	Danio rerio zebrafish - (species) D	pepsinogen A2	Danio rerio zebrafish - (species)	Published - Accepted by Curator
pepsinogen A2	Digestion (absence of stomach)	Gene Loss, Deletion N	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001925	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species)	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	pepsinogen A2	Oryzias latipes Japanese medaka - (species) Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
pepsinogen A2	Digestion (absence of stomach)	Gene Loss, Deletion N	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001931	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species) Gasterosteus aculeatus three-spined stickleback - (species)	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	pepsinogen A2	Takifugu rubripes torafugu - (species) Tetraodon nigroviridis spotted green pufferfish - (species)	Published - Accepted by Curator
pepsinogen A3	Digestion (absence of stomach)	Gene Loss, Deletion N	Danio rerio zebrafish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001919	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Gadus morhua Atlantic cod - (species) Gasterosteus aculeatus three-spined stickleback - (species)	Danio rerio zebrafish - (species) D	pepsinogen A3	Danio rerio zebrafish - (species)	Published - Accepted by Curator
pepsinogen A3	Digestion (absence of stomach)	Gene Loss, Deletion N	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001926	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species)	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	pepsinogen A3	Oryzias latipes Japanese medaka - (species) Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
pepsinogen A3	Digestion (absence of stomach)	Gene Loss, Deletion N	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001927	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species)	Oryzias latipes Japanese medaka - (species) D Xiphophorus maculatus southern platyfish - (species) D	pepsinogen A3	Oryzias latipes Japanese medaka - (species) Xiphophorus maculatus southern platyfish - (species)	Published - Accepted by Curator
pepsinogen A3	Digestion (absence of stomach)	Gene Loss, Deletion N	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	Intergeneric or Higher	Candidate Gene	Castro LF; Gonçalves O; Mazan S ; et al. (2014) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.	GP00001932	PGA4 P0DJD7	Physiology	Absence of the gene in the genome sequence - high synteny N	Oreochromis niloticus Nile tilapia - (species) Gasterosteus aculeatus three-spined stickleback - (species)	Takifugu rubripes torafugu - (species) D Tetraodon nigroviridis spotted green pufferfish - (species) D	pepsinogen A3	Takifugu rubripes torafugu - (species) Tetraodon nigroviridis spotted green pufferfish - (species)	Published - Accepted by Curator
pepsinogen B	Digestion (absence of stomach)	Gene Loss, Deletion N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001913	PGB Q8SQ41	Physiology	Absence of the gene in the genome sequence - high synteny N	Monodelphis domestica gray short-tailed opossum - (species)	Ornithorhynchus anatinus platypus - (species) D	pepsinogen B	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
pepsinogen C	Digestion (absence of stomach)	Gene Loss, Deletion N	Ornithorhynchus anatinus platypus - (species) D	Intergeneric or Higher	Candidate Gene	Ordoñez GR; Hillier LW; Warren WC ; et al. (2008) Loss of genes implicated in gastric function during platypus evolution.	GP00001912	PGC P20142	Physiology	Absence of the gene in the genome sequence - high synteny N	Monodelphis domestica gray short-tailed opossum - (species)	Ornithorhynchus anatinus platypus - (species) D	pepsinogen C	Ornithorhynchus anatinus platypus - (species)	Published - Accepted by Curator
PG	Fruit ripening	Coding, Deletion N	Capsicum annuum (species) D	Domesticated	Candidate Gene	Kim S; Park M; Yeom SI ; et al. (2014) Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum speci[...]	GP00001448	PG B9VRK6	Physiology	a partial deletion of about 90aa in the C-terminal region N	Solanum lycopersicum tomato - (species)	Capsicum annuum (species) D	PG	Capsicum annuum (species)	Published - Accepted by Curator
PHO5	Low-phosphate adaptation (experimental evolution)	Gene Amplification, Deletion	Saccharomyces cerevisiae baker's yeast - (species)	Experimental Evolution	Association Mapping	Gresham D; Desai MM; Tucker CM ; et al. (2008) The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments [...]	GP00000863	PHO5 P00635	Physiology	Deletion. Out of 8 lines; 2 distinct lines evolved structural variation at PHO5. (Interestingly; one was a deletion and another one was a gene amplification)	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species)	PHO5	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
phytochrome A-associated F-box protein	Circadian rhythm (phase)	Coding, Deletion	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Müller NA; Wijnen CL; Srinivasan A ; et al. (2016) Domestication selected for deceleration of the circadian clock in cultivated tomato.	GP00001287	101247753 K4CV85	Physiology	3bp deletion in CDS causing a 'K (lysine) loss in the highly conserved C terminus of EID1	Solanum pimpinellifolium (species)	Solanum lycopersicum tomato - (species) D	phytochrome A-associated F-box protein	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
phytochrome B (PHYB)	Light sensitivity	Coding, Deletion	Sorghum bicolor sorghum - (species) D	Domesticated	Linkage Mapping	Childs KL; Miller FR; Cordonnier-Pratt MM ; et al. (1997) The sorghum photoperiod sensitivity gene, Ma3, encodes a phytochrome B.	GP00000872	PHYB P14713	Physiology	1bp deletion 30bp upstream of the stop codon	Sorghum bicolor sorghum - (species)	Sorghum bicolor sorghum - (species) D	phytochrome B (PHYB)	Sorghum bicolor sorghum - (species)	Published - Accepted by Curator
phytochrome D (PHYD)	Leaf morphology (increased petiole length) Cotyledon morphology (reduced cotyledon area) Coloration (anthocyanin accumulation in seedling stems) Plant size (diminished effect of end-of-day pulse of far red light on hypocotyl elongation) Plant architecture (decrease in number of rosette leaves at onset of flowering)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Candidate Gene	Aukerman MJ; Hirschfeld M; Wester L ; et al. (1997) A deletion in the PHYD gene of the Arabidopsis Wassilewskija ecotype defines a role for phytochrome [...]	GP00000874	PHYD P42497	Morphology Morphology Morphology Physiology Morphology	14bp deletion causing premature stop codon N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	phytochrome D (PHYD)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Pid3	Pathogen resistance	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Chen J; Shi Y; Liu W ; et al. (2011) A Pid3 allele from rice cultivar Gumei2 confers resistance to Magnaporthe oryzae.	GP00000883	Pid3 C0LMX9	Physiology	1bp deletion resulting in truncated protein N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Pid3	Oryza sativa rice - (species)	Published - Accepted by Curator
Pitx1	Limb Identity (feathered feet)	Cis-regulatory, Deletion	Columba livia rock pigeon - (species) D	Domesticated	Linkage Mapping	Domyan ET; Kronenberg Z; Infante CR ; et al. (2016) Molecular shifts in limb identity underlie development of feathered feet in two domestic avian speci[...]	GP00000885	PITX1 P56673	Morphology	44kb deletion	Columba livia rock pigeon - (species)	Columba livia rock pigeon - (species) D	Pitx1	Columba livia rock pigeon - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000886	Pitx1 P70314	Morphology	488bp promoter region : deletion 1 ; 5 kb deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000887	Pitx1 P70314	Morphology	488bp promoter region : deletion 2 ; 757bp deletion present in the pelvic-reduced BEPA population from Alaska	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000888	Pitx1 P70314	Morphology	488bp promoter region : deletion 3 ; 3.5 kb deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000889	Pitx1 P70314	Morphology	488bp promoter region : deletion 4 ; 757 bp deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000890	Pitx1 P70314	Morphology	488bp promoter region : deletion 5 ; 2 kb deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000891	Pitx1 P70314	Morphology	488bp promoter region : deletion 6 ; 973bp deletion present in the Hump Lake AK pelvic-reduced population (HUMP)	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000892	Pitx1 P70314	Morphology	488bp promoter region : deletion 7 ; 1868bp deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000893	Pitx1 P70314	Morphology	488bp promoter region : deletion 8 ; 8 kb deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
pitx1	Pelvis morphology (loss of ventral spines)	Cis-regulatory, Deletion	Gasterosteus aculeatus three-spined stickleback - (species) D	Intraspecific	Linkage Mapping	Shapiro MD; Marks ME; Peichel CL ; et al. (2004) Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks. 1 Additional References Chan YF; Marks ME; Jones FC (2010) Adaptive evolution of pelvic reduction in sticklebacks by recurrent deletion of a Pitx1 enhancer.	GP00000894	Pitx1 P70314	Morphology	488bp promoter region : deletion 9 ; 8 kb deletion	Gasterosteus aculeatus three-spined stickleback - (species)	Gasterosteus aculeatus three-spined stickleback - (species) D	pitx1	Gasterosteus aculeatus three-spined stickleback - (species)	Published - Accepted by Curator
PMEL17	Coloration (feathers)	Coding, Deletion	Gallus gallus chicken - (species) D	Domesticated	Candidate Gene	Kerje S; Sharma P; Gunnarsson U ; et al. (2004) The Dominant white, Dun and Smoky color variants in chicken are associated with insertion/deletion p[...]	GP00000911	PMEL Q98917	Morphology	deletion of amino acids 731-735	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	PMEL17	Gallus gallus chicken - (species)	Published - Accepted by Curator
PMEL17	Coloration (feathers)	Coding, Deletion	Gallus gallus chicken - (species) D	Domesticated	Candidate Gene	Kerje S; Sharma P; Gunnarsson U ; et al. (2004) The Dominant white, Dun and Smoky color variants in chicken are associated with insertion/deletion p[...]	GP00000912	PMEL Q98917	Morphology	deletion of amino acids 280-284	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	PMEL17	Gallus gallus chicken - (species)	Published - Accepted by Curator
PMEL17	Coloration (coat)	Coding, Deletion	Bos grunniens domestic yak - (species) D	Domesticated	Candidate Gene	Zhang MQ; Xu X; Luo SJ (2014) The genetics of brown coat color and white spotting in domestic yaks (Bos grunniens).	GP00001365	PMEL P40967	Morphology	c.50_52del p.Leu18del in signal peptide	Bos grunniens domestic yak - (species)	Bos grunniens domestic yak - (species) D	PMEL17	Bos grunniens domestic yak - (species)	Published - Accepted by Curator
PMEL17	Coloration (coat)	Coding, Deletion	Bos taurus cattle - (species) D Bos grunniens domestic yak - (species) D	Domesticated	Candidate Gene	Jolly RD; Wills JL; Kenny JE ; et al. (2008) Coat-colour dilution and hypotrichosis in Hereford crossbred calves.	GP00002028	PMEL Q06154	Morphology	3bp deletion - g.57669913_57669915delTTC - c.50_52delTTC - p.Leu19del	Bos taurus cattle - (species)	Bos taurus cattle - (species) D Bos grunniens domestic yak - (species) D	PMEL17	Bos taurus cattle - (species) Bos grunniens domestic yak - (species)	Published - Accepted by Curator
poils au dos (pad)	Bristle number (thorax)	Coding, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Linkage Mapping	Gibert JM; Marcellini S; David JR ; et al. (2005) A major bristle QTL from a selected population of Drosophila uncovers the zinc-finger transcription [...]	GP00000915	pad Q9VEW6	Morphology	29bp deletion N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	poils au dos (pad)	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
ppw-1	Resistance to dsRNA	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Linkage Mapping	Tijsterman M; Okihara KL; Thijssen K ; et al. (2002) PPW-1, a PAZ/PIWI protein required for efficient germline RNAi, is defective in a natural isolate of[...]	GP00000921		Physiology	1bp deletion resulting in stop codon N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	ppw-1	Caenorhabditis elegans (species)	Published - Accepted by Curator
PRDM9	Recombination rate (male)	Coding, Deletion	Bos taurus cattle - (species)	Domesticated	Linkage Mapping	Sandor C; Li W; Coppieters W ; et al. (2012) Genetic variants in REC8, RNF212, and PRDM9 influence male recombination in cattle.	GP00001640	PRDM9 A6QNW2	Physiology	variation in the C-terminal tandem array of Cys2His2 zinc-finger domains: 22 domains > 20 domains decreasing 6-fold Genome wide hot window usage in Crossing Over	Bos taurus cattle - (species)	Bos taurus cattle - (species)	PRDM9	Bos taurus cattle - (species)	Published - Accepted by Curator
Prolactin	Hair length (short)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated	Linkage Mapping	Littlejohn MD; Henty KM; Tiplady K ; et al. (2014) Functionally reciprocal mutations of the prolactin signalling pathway define hairy and slick cattle.	GP00002033	PRL P01239	Morphology	1-bp deletion in exon 10 that introduces a premature stop codon (p.Leu462*) and loss of 120 C-terminal amino acids from the long isoform of the receptor (ss1067289408; chr20:39136558GC>G) N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Prolactin	Bos taurus cattle - (species)	Published - Accepted by Curator
Prolactin receptor	Feather (slow-feathering ; delay)	Coding, Deletion	Meleagris gallopavo mexicana (subspecies) D	Domesticated	Association Mapping	Derks MFL; Herrero-Medrano JM; Crooijmans RPMA ; et al. (2018) Early and late feathering in turkey and chicken: same gene but different mutations.	GP00002281	PRLR P16471	Morphology	g.9426018_9426022delTTGGT p.Glu726Aspfs*7 truncated PRLR protein that lacks 98 C-terminal AA ; this truncated PRLR protein is strikingly similar to the protein encoded by the slow feathering K allele in chicken	Meleagris gallopavo mexicana (subspecies)	Meleagris gallopavo mexicana (subspecies) D	Prolactin receptor	Meleagris gallopavo mexicana (subspecies)	Published - Accepted by Curator
Prolactin receptor	Hair (slick ; short ; thermotolerance) Thermoregulation (tolerance to warm climate)	Coding, Deletion N	Bos taurus cattle - (species) D	Domesticated		Littlejohn MD; Henty KM; Tiplady K ; et al. (2014) Functionally reciprocal mutations of the prolactin signalling pathway define hairy and slick cattle.	GP00002282	PRLR P16471	Morphology Physiology	g.39136559delC p.Leu462* N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Prolactin receptor	Bos taurus cattle - (species)	Published - Accepted by Curator
protoporphyrinogen oxidase (PPO2 = PPX2L)	Xenobiotic resistance (herbicides)	Coding, Deletion	Amaranthus tuberculatus (species) D	Intraspecific	Linkage Mapping	Patzoldt WL; Hager AG; McCormick JS ; et al. (2006) A codon deletion confers resistance to herbicides inhibiting protoporphyrinogen oxidase.	GP00000929	PPX2L Q0NZW6	Physiology	3bp deletion; deletion of G210	Amaranthus tuberculatus (species)	Amaranthus tuberculatus (species) D	protoporphyrinogen oxidase (PPO2 = PPX2L)	Amaranthus tuberculatus (species)	Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37	Flowering time	Coding, Deletion N	Sorghum bicolor sorghum - (species) D	Domesticated	Linkage Mapping	Murphy RL; Klein RR; Morishige DT ; et al. (2011) Coincident light and clock regulation of pseudoresponse regulator protein 37 (PRR37) controls photop[...]	GP00000930	PRR37 Q0D3B6	Physiology	1bp deletion resulting in frameshift N	Sorghum bicolor sorghum - (species)	Sorghum bicolor sorghum - (species) D	PRR37 pseudoresponse regulator protein 37	Sorghum bicolor sorghum - (species)	Published - Accepted by Curator
PRR37 pseudoresponse regulator protein 37	Flowering time (heading date)	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Koo BH; Yoo SC; Park JW ; et al. (2013) Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide ra[...]	GP00001633	PRR37 Q0D3B6	Physiology	Nonfunctional allele PRR37-1a: a 8-bp deletion at position 1515 leading to frameshift N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	PRR37 pseudoresponse regulator protein 37	Oryza sativa rice - (species)	Published - Accepted by Curator
PTS/TKD1	Leaf shape	Cis-regulatory, Deletion	Solanum galapagense (species) D	Interspecific	Linkage Mapping	Kimura S; Koenig D; Kang J ; et al. (2008) Natural variation in leaf morphology results from mutation of a novel KNOX gene.	GP00000938	PTS B2Y2G9	Morphology	1bp deletion at -1232 from start Met	Solanum cheesmaniae (species)	Solanum galapagense (species) D	PTS/TKD1	Solanum galapagense (species)	Published - Accepted by Curator
qSW5	Grain size	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Shomura A; Izawa T; Ebana K ; et al. (2008) Deletion in a gene associated with grain size increased yields during rice domestication. 1 Additional References Huang X; Wei X; Sang T (2010) Genome-wide association studies of 14 agronomic traits in rice landraces.	GP00000944	qSW5 F8SPD1	Morphology	1212bp deletion N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	qSW5	Oryza sativa rice - (species)	Published - Accepted by Curator
Rc	Coloration (seed)	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Sweeney MT; Thomson MJ; Cho YG ; et al. (2007) Global dissemination of a single mutation conferring white pericarp in rice.	GP00000959	Rc A7J5U6	Morphology	14bp deletion N	Oryza rufipogon (species)	Oryza sativa rice - (species) D	Rc	Oryza sativa rice - (species)	Published - Accepted by Curator
RCO-A/B (Reduced Complexity)	Leaf shape (simplification)	Gene Loss, Deletion N	Arabidopsis thaliana thale cress - (species) D	Interspecific	Candidate Gene	Vlad D; Kierzkowski D; Rast MI ; et al. (2014) Leaf shape evolution through duplication, regulatory diversification, and loss of a homeobox gene.	GP00000962	RCO A0A023NDU4	Morphology	Gene deletion N	Arabidopsis (genus)	Arabidopsis thaliana thale cress - (species) D	RCO-A/B (Reduced Complexity)	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Gene Loss, Deletion N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001247	At4g11040 Q9T010	Physiology	gene loss: -5.7KB at position -4.38KB N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001248	At4g11040 Q9T010	Physiology	-23bp at position 1371 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001249	At4g11040 Q9T010	Physiology	-25bp at position 25 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001250	At4g11040 Q9T010	Physiology	-50bp at position 50; -390bp at position 504 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001251	At4g11040 Q9T010	Physiology	-13bp at position 1440 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001252	At4g11040 Q9T010	Physiology	-2bp at position 1456 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001253	At4g11040 Q9T010	Physiology	-4bp at position 1391 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001254	At4g11040 Q9T010	Physiology	-16bp at position 1054 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001255	At4g11040 Q9T010	Physiology	-19bp at position 594 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001256	At4g11040 Q9T010	Physiology	-2bp at position 606 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001257	At4g11040 Q9T010	Physiology	-4bp at position 11 N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001260	At4g11040 Q9T010	Physiology	-1bp at position 498 causing premature STOP N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RDO5 REDUCED DORMANCY5	Seed dormancy	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Xiang Y; Song B; Née G ; et al. (2016) Sequence Polymorphisms at the REDUCED DORMANCY5 Pseudophosphatase Underlie Natural Variation in Arab[...] 1 Additional References Bentsink L; Hanson J; Hanhart CJ (2010) Natural variation for seed dormancy in Arabidopsis is regulated by additive genetic and molecular pa[...]	GP00001261	At4g11040 Q9T010	Physiology	-1bp at position 498 causing premature STOP N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RDO5 REDUCED DORMANCY5	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
RIM15	Low-glucose adaptation (experimental evolution)	Coding, Deletion N	Saccharomyces cerevisiae baker's yeast - (species) D	Experimental Evolution	Association Mapping	Kao KC; Sherlock G (2008) Molecular characterization of clonal interference during adaptive evolution in asexual populations o[...] 1 Additional References Kvitek DJ; Sherlock G (2011) Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugg[...]	GP00000989	RIM15 P43565	Physiology	1bp deletion resulting in premature stop codon N	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	RIM15	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
ripening inhibitor (rin) = LeMADS-RIN and LeMADS-MC	Fruit ripening	Gene Loss, Deletion	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Vrebalov J; Ruezinsky D; Padmanabhan V ; et al. (2002) A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (rin) locus. 1 Additional References Giovannoni JJ; Noensie EN; Ruezinsky DM (1995) Molecular genetic analysis of the ripening-inhibitor and non-ripening loci of tomato: a first step i[...]	GP00000990	MADS-RIN Q8S4L4	Physiology	2.6kb deletion of the region located between gene LeMADS-RIN and gene LeMADS-MC; resulting in a chimeric mRNA that contains both LeMADS-RIN and LeMADS-MC coding regions.	Solanum lycopersicum tomato - (species)	Solanum lycopersicum tomato - (species) D	ripening inhibitor (rin) = LeMADS-RIN and LeMADS-MC	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator
RME1	Sporulation efficiency	Cis-regulatory, Deletion	Saccharomyces cerevisiae baker's yeast - (species) D	Domesticated	Linkage Mapping	Deutschbauer AM; Davis RW (2005) Quantitative trait loci mapped to single-nucleotide resolution in yeast.	GP00000994	RME1 P32338	Physiology	single nucleotide deletion in promoter region	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	RME1	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
RME1 [possible pseudo-replicate of laboratory strain entry]	Sporulation efficiency	Cis-regulatory, Deletion	Saccharomyces cerevisiae baker's yeast - (species) D	Intraspecific	Linkage Mapping	Gerke J; Lorenz K; Cohen B (2009) Genetic interactions between transcription factors cause natural variation in yeast.	GP00000995	RME1 P32338	Physiology	single nucleotide deletion in promoter region	Saccharomyces cerevisiae baker's yeast - (species)	Saccharomyces cerevisiae baker's yeast - (species) D	RME1 [possible pseudo-replicate of laboratory strain entry]	Saccharomyces cerevisiae baker's yeast - (species)	Published - Accepted by Curator
RNF11	Body size (dwarfism)	Cis-regulatory, Deletion	Bos taurus cattle - (species) D	Domesticated	Association Mapping	Sartelet A; Druet T; Michaux C ; et al. (2012) A splice site variant in the bovine RNF11 gene compromises growth and regulation of the inflammatory[...]	GP00002275	RNF11 Q9Y3C5	Morphology	g.95601696A>G c.124-2A>G affecting splicing site	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	RNF11	Bos taurus cattle - (species)	Published - Accepted by Curator
RPS4	Pathogen resistance	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Narusaka M; Shirasu K; Noutoshi Y ; et al. (2009) RRS1 and RPS4 provide a dual Resistance-gene system against fungal and bacterial pathogens. 1 Additional References Narusaka M; Shirasu K; Noutoshi Y (2009) RRS1 and RPS4 provide a dual Resistance-gene system against fungal and bacterial pathogens.	GP00001013	RPS4 Q9XGM3	Physiology	5bp deletion resulting in frameshift N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	RPS4	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
Ruby	Coloration (fruit; cold-dependent)	Cis-regulatory, Deletion	Citrus sinensis sweet orange - (species) D	Domesticated	Candidate Gene	Butelli E; Licciardello C; Zhang Y ; et al. (2012) Retrotransposons control fruit-specific, cold-dependent accumulation of anthocyanins in blood orange[...]	GP00002106	Ruby H6U1F1	Morphology	Recombination between the LTRs of the TE (Tcs1) insertion which led to just one LTR. The single LTR still confers responsiveness to cold temperatures. This recombination event results in enhanced expression of Ruby in Maro (I).	Citrus (genus)	Citrus sinensis sweet orange - (species) D	Ruby	Citrus sinensis sweet orange - (species)	Published - Accepted by Curator
RYR	Xenobiotic resistance (insecticide ; diamide ; chlorantraniliprole ; flubendiamide)	Coding, Deletion N	Plutella xylostella diamondback moth - (species) D	Intraspecific	Candidate Gene	Gong W; Yan HH; Gao L ; et al. (2014) Chlorantraniliprole resistance in the diamondback moth (Lepidoptera: Plutellidae).	GP00002609	RyR Q24498	Physiology	14 amino acid (Q4546-S4559) deletion. RyR transcript levels are lower in resistant strains than in susceptible strains. N	Plutella xylostella diamondback moth - (species)	Plutella xylostella diamondback moth - (species) D	RYR	Plutella xylostella diamondback moth - (species)	Published - Accepted by Curator
Sd1 (=GA20ox-2)	Plant size (dwarfism)	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Sasaki A; Ashikari M; Ueguchi-Tanaka M ; et al. (2002) Green revolution: a mutant gibberellin-synthesis gene in rice. 3 Additional References Ashikari M; Sakakibara H; Lin S (2005) Cytokinin oxidase regulates rice grain production. Monna L; Kitazawa N; Yoshino R (2002) Positional cloning of rice semidwarfing gene, sd-1: rice "green revolution gene" encodes a mutant en[...] Spielmeyer W; Ellis MH; Chandler PM (2002) Semidwarf (sd-1), "green revolution" rice, contains a defective gibberellin 20-oxidase gene.	GP00001028	GA20OX2 Q0JH50	Morphology	383bp deletion introducing premature stop codon N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Sd1 (=GA20ox-2)	Oryza sativa rice - (species)	Published - Accepted by Curator
se5	Flowering time	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Izawa T; Oikawa T; Tokutomi S ; et al. (2000) Phytochromes confer the photoperiodic control of flowering in rice (a short-day plant).	GP00001034	HO1 Q69XJ4	Physiology	1bp deletion in exon 1; causes a frameshift and a premature stop codon N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	se5	Oryza sativa rice - (species)	Published - Accepted by Curator
SG3/At4g30720	Growth (shoots)	Coding, Deletion N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Vlad D; Rappaport F; Simon M ; et al. (2010) Gene transposition causing natural variation for growth in Arabidopsis thaliana.	GP00001036	PDE327 F4JQE2	Physiology	Premature stop codon at the SG3 locus in Bur-0 (a 1bp deletion in exon four of At4g30720 results in a frame shift; predicting a premature stop codon which terminates the ORF after 5 amino acids); but in this accession this gene has a functional copy at a N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	SG3/At4g30720	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
SGK3	Hair (hypotrichosis)	Coding, Deletion N	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Parker HG; Harris A; Dreger DL ; et al. (2017) The bald and the beautiful: hairlessness in domestic dog breeds.	GP00002262	Sgk3 Q9ERE3	Morphology	Val96GlyfsTer50 deletion that removes four bases (TTAG) within exon 4 ; creating a new protein sequence for 50 amino acids and a premature stop at amino acid 157 N	Canis lupus familiaris dog - (subspecies)	Canis lupus familiaris dog - (subspecies) D	SGK3	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
Shattering1 - OsSh1	Seed shattering	Gene Loss, Deletion N	Oryza glaberrima African rice - (species) D	Domesticated	Association Mapping	Wang M; Yu Y; Haberer G ; et al. (2014) The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication.	GP00001038	YAB2 Q10FZ7	Physiology	45kb deletion resulting in complete removal of OsSh1 in O. glaberrima; resulting in seed abscission phenotype N	Oryza barthii (species)	Oryza glaberrima African rice - (species) D	Shattering1 - OsSh1	Oryza glaberrima African rice - (species)	Published - Accepted by Curator
Shattering1 - Sh1	Seed shattering	Coding, Deletion N	Sorghum bicolor sorghum - (species) D	Domesticated	Linkage Mapping	Lin Z; Li X; Shannon LM ; et al. (2012) Parallel domestication of the Shattering1 genes in cereals.	GP00001040	YAB2 Q10FZ7	Physiology	2.2kb deletion at the location of exons 2 and 3 N	Sorghum virgatum (species)	Sorghum bicolor sorghum - (species) D	Shattering1 - Sh1	Sorghum bicolor sorghum - (species)	Published - Accepted by Curator
SIGLEC17P (pseudogene)	Pathogen resistance	Coding, Deletion N	Homo sapiens human - (species) D	Interspecific	Candidate Gene	Wang X; Mitra N; Secundino I ; et al. (2012) Specific inactivation of two immunomodulatory SIGLEC genes during human evolution.	GP00001053	SIGLEC13 Q64JA4	Physiology	1bp deletion resulting in frame-shift (pseudogenization) N	Primates (order)	Homo sapiens human - (species) D	SIGLEC17P (pseudogene)	Homo sapiens human - (species)	Published - Accepted by Curator
SLB1/2	Pathogen resistance (Root parasitic plant) (root parasitic plant)	Gene Loss, Deletion N	Oryza sativa rice - (species)	Intraspecific	Linkage Mapping	Cardoso C; Zhang Y; Jamil M ; et al. (2014) Natural variation of rice strigolactone biosynthesis is associated with the deletion of two MAX1 ort[...]	GP00001631	Os01g0700900 M9R6D3	Physiology	deletion of 2 cytochrome P450 genes (Os010700900 & Os01g0701400) N	Oryza sativa rice - (species)	Oryza sativa rice - (species)	SLB1/2	Oryza sativa rice - (species)	Published - Accepted by Curator
SLC24A	Coloration (eyes)	Coding, Deletion N	Equus caballus horse - (species) D	Domesticated	Association Mapping	Mack M; Kowalski E; Grahn R ; et al. (2017) Two Variants in SLC24A5 Are Associated with "Tiger-Eye" Iris Pigmentation in Puerto Rican Paso Fino [...]	GP00002276	Slc24a5 Q8C261	Morphology	628 bp deletion encompassing all of exon 7 of SLC24A5 (c.875-340_1081+82del) N	Equus caballus horse - (species)	Equus caballus horse - (species) D	SLC24A	Equus caballus horse - (species)	Published - Accepted by Curator
SLC45A2=MATP	Coloration (feathers)	Coding, Deletion N	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Gunnarsson U; Hellström AR; Tixier-Boichard M ; et al. (2007) Mutations in SLC45A2 cause plumage color variation in chicken and Japanese quail.	GP00001059	SLC45A2 Q9UMX9	Morphology	1bp deletion at codon 36; resulting in frameshift and a premature stop codon in exon 1; the corresponding mRNA appears to be degraded by Nonsense-mediated mRNA decay. N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	SLC45A2=MATP	Gallus gallus chicken - (species)	Published - Accepted by Curator
SLC45A2=MATP	Coloration (coat; albinism)	Coding, Deletion N	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Winkler PA; Gornik KR; Ramsey DT ; et al. (2014) A partial gene deletion of SLC45A2 causes oculocutaneous albinism in Doberman pinscher dogs.	GP00002296	SLC45A2 Q9UMX9	Morphology	4081 base pair deletion resulting in loss of the terminus of exon seven of SLC45A2 N	Canis lupus familiaris dog - (subspecies)	Canis lupus familiaris dog - (subspecies) D	SLC45A2=MATP	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
SLC45A2=MATP	Coloration (coat; albinism)	Coding, Deletion N	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Caduff M; Bauer A; Jagannathan V ; et al. (2017) A single base deletion in the SLC45A2 gene in a Bullmastiff with oculocutaneous albinism.	GP00002298	SLC45A2 Q9UMX9	Morphology	c.1287delC p.Met430CysfsTer4 N	Canis lupus familiaris dog - (subspecies)	Canis lupus familiaris dog - (subspecies) D	SLC45A2=MATP	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
SMAD family member 2 (SMAD2)	Body size (weight)	Cis-regulatory, Deletion	Homo sapiens human - (species) D	Domesticated	Association Mapping	Rimbault M; Beale HC; Schoenebeck JJ ; et al. (2013) Derived variants at six genes explain nearly half of size reduction in dog breeds.	GP00001477	SMAD2 E2RP23	Morphology	9.9 kb deletion 24-kb dowstream from coding region	Canis lupus gray wolf - (species)	Homo sapiens human - (species) D	SMAD family member 2 (SMAD2)	Homo sapiens human - (species)	Published - Accepted by Curator
SOX10	Coloration (feathers)	Cis-regulatory, Deletion	Columba livia rock pigeon - (species) D	Domesticated	Linkage Mapping	Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014) Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.	GP00001067	Sox10 Q04888	Morphology	melanocyte conserved enhancer deletion	Columba livia rock pigeon - (species)	Columba livia rock pigeon - (species) D	SOX10	Columba livia rock pigeon - (species)	Published - Accepted by Curator
SOX10	Coloration (feathers)	Cis-regulatory, Deletion	Columba livia rock pigeon - (species) D	Domesticated	Linkage Mapping	Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014) Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.	GP00001068	Sox10 Q04888	Morphology	melanocyte conserved enhancer deletion	Columba livia rock pigeon - (species)	Columba livia rock pigeon - (species) D	SOX10	Columba livia rock pigeon - (species)	Published - Accepted by Curator
SOX10	Coloration (feathers)	Cis-regulatory, Deletion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Gunnarsson U; Kerje S; Bed'hom B ; et al. (2011) The Dark brown plumage color in chickens is caused by an 8.3-kb deletion upstream of SOX10. 1 Additional References Zhu T; Liu M; Peng S (2022) A Deletion Upstream of SOX10 Causes Light Yellow Plumage Colour in Chicken.	GP00001069	Sox10 Q04888	Morphology	8.3kb deletion upstream of the SOX10 transcription start site	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	SOX10	Gallus gallus chicken - (species)	Published - Accepted by Curator
squalene synthase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Caenorhabditis elegans (species) D	Intergeneric or Higher	Candidate Gene	Kurzchalia TV; Ward S (2003) Why do worms need cholesterol? 1 Additional References Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001947	FDFT1 P37268	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Caenorhabditis elegans (species) D	squalene synthase	Caenorhabditis elegans (species)	Published - Accepted by Curator
squalene synthase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intergeneric or Higher	Candidate Gene	Kurzchalia TV; Ward S (2003) Why do worms need cholesterol? 1 Additional References Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001948	FDFT1 P37268	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Drosophila melanogaster fruit fly - (species) D	squalene synthase	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
srg-34	Diapause (resistance to dauer-inducing pheromone)	Gene Loss, Deletion N	Caenorhabditis briggsae (species)	Domesticated	Linkage Mapping	McGrath PT; Xu Y; Ailion M ; et al. (2011) Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes.	GP00001074	srg-34 Q9XXQ5	Physiology	33kb deletion N	Caenorhabditis briggsae (species)	Caenorhabditis briggsae (species)	srg-34	Caenorhabditis briggsae (species)	Published - Accepted by Curator
srg-36/37	Diapause (resistance to dauer-inducing pheromone)	Gene Loss, Deletion N	Caenorhabditis elegans (species)	Domesticated	Linkage Mapping	McGrath PT; Xu Y; Ailion M ; et al. (2011) Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes.	GP00001075	srg-34 Q9XXQ5	Physiology	6795bp deletion N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	srg-36/37	Caenorhabditis elegans (species)	Published - Accepted by Curator
srg-36/37	Diapause (resistance to dauer-inducing pheromone)	Gene Loss, Deletion N	Caenorhabditis elegans (species)	Domesticated	Linkage Mapping	McGrath PT; Xu Y; Ailion M ; et al. (2011) Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes.	GP00001076	srg-34 Q9XXQ5	Physiology	4906bp deletion N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species)	srg-36/37	Caenorhabditis elegans (species)	Published - Accepted by Curator
sterol C5 desaturase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intergeneric or Higher	Candidate Gene	Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001953	ERG3 P32353	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Drosophila melanogaster fruit fly - (species) D	sterol C5 desaturase	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
sterol C5 desaturase	Cholesterol metabolism (cholesterol biosynthesis)	Gene Loss, Deletion N	Caenorhabditis elegans (species) D	Intergeneric or Higher	Candidate Gene	Vinci G; Xia X; Veitia RA (2008) Preservation of genes involved in sterol metabolism in cholesterol auxotrophs: facts and hypotheses.	GP00001954	ERG3 P32353	Physiology	gene absent in the genome N	Homo sapiens human - (species)	Caenorhabditis elegans (species) D	sterol C5 desaturase	Caenorhabditis elegans (species)	Published - Accepted by Curator
str-217	Xenobiotic resistance (insecticide; DEET)	Coding, Deletion N	Caenorhabditis elegans (species) D	Intraspecific	Candidate Gene	Dennis EJ; Dobosiewicz M; Jin X ; et al. (2018) A natural variant and engineered mutation in a GPCR promote DEET resistance in C. elegans.	GP00001783	str-217 Q9XX85	Physiology	deletion that leads to a predicted frame shift and early stop codon - the predicted resulting protein has only one transmembrane domain instead of the 7 transmembrane domains - 138-bp deletion in exon 2 and 3 and intervening intron according to https://www.wormbase.org/species/c_elegans/variation/WBVar02076179#02-45-3 and email from Emily Dennis from 9 March 2019 N	Caenorhabditis elegans (species)	Caenorhabditis elegans (species) D	str-217	Caenorhabditis elegans (species)	Published - Accepted by Curator
Sulfotransferase-OXA-Resistance (SULT-OR)	Xenobiotic resistance (oxamniquine)	Coding, Deletion	Schistosoma mansoni (species) D	Intraspecific	Linkage Mapping	Valentim CL; Cioli D; Chevalier FD ; et al. (2013) Genetic and molecular basis of drug resistance and species-specific drug action in schistosome paras[...]	GP00001470	SULT-OR G4VLE5	Physiology	E142del	Schistosoma mansoni (species)	Schistosoma mansoni (species) D	Sulfotransferase-OXA-Resistance (SULT-OR)	Schistosoma mansoni (species)	Published - Accepted by Curator
Svb/ovo	Trichome pattern (larva)	9 Mutations: Cis-regulatory	Drosophila sechellia (species) D	Interspecific	Linkage Mapping	McGregor AP; Orgogozo V; Delon I ; et al. (2007) Morphological evolution through multiple cis-regulatory mutations at a single gene. 1 Additional References Preger-Ben Noon E; Davis FP; Stern DL (2016) Evolved Repression Overcomes Enhancer Robustness.	GP00001085	ovo P51521	Morphology	9 mutations	Drosophila simulans (species) Drosophila mauritiana (species)	Drosophila sechellia (species) D	Svb/ovo	Drosophila sechellia (species)	Published - Accepted by Curator
T-box transcription factor (TBX3)	Coloration (coat)	Cis-regulatory, Deletion	Equus caballus horse - (species) D	Domesticated	Linkage Mapping	Imsland F; McGowan K; Rubin CJ ; et al. (2016) Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation that underlies Dun camouflage colo[...]	GP00001462	TBX3 O15119	Morphology	missing sequence of nearly contiguous 1609bp and 8 bp segments	Equus caballus horse - (species)	Equus caballus horse - (species) D	T-box transcription factor (TBX3)	Equus caballus horse - (species)	Published - Accepted by Curator
TAC1	Xenobiotic resistance	Coding, Deletion	Candida albicans (species) D	Intraspecific	Association Mapping	Coste A; Selmecki A; Forche A ; et al. (2007) Genotypic evolution of azole resistance mechanisms in sequential Candida albicans isolates.	GP00001092	TAC1 A7IZW4	Physiology	1a.a. deletion	Candida albicans (species)	Candida albicans (species) D	TAC1	Candida albicans (species)	Published - Accepted by Curator
TAC1	Xenobiotic resistance	Coding, Deletion	Candida albicans (species) D	Intraspecific	Association Mapping	Coste A; Selmecki A; Forche A ; et al. (2007) Genotypic evolution of azole resistance mechanisms in sequential Candida albicans isolates.	GP00001093	TAC1 A7IZW4	Physiology	7a.a. deletion	Candida albicans (species)	Candida albicans (species) D	TAC1	Candida albicans (species)	Published - Accepted by Curator
tan	Coloration (abdomen; male)	Cis-regulatory, Deletion	Drosophila santomea (species) D	Interspecific	Linkage Mapping	Jeong S; Rebeiz M; Andolfatto P ; et al. (2008) The evolution of gene regulation underlies a morphological difference between two Drosophila sister [...] 1 Additional References Rebeiz M; Ramos-Womack M; Jeong S (2009) Evolution of the tan locus contributed to pigment loss in Drosophila santomea: a response to Matute [...]	GP00001100	t Q9W369	Morphology	san MSE del30 (30bp deletion)	Drosophila yakuba (species)	Drosophila santomea (species) D	tan	Drosophila santomea (species)	Published - Accepted by Curator
tan	Coloration (abdomen; male)	Cis-regulatory, Deletion	Drosophila santomea (species) D	Interspecific	Linkage Mapping	Jeong S; Rebeiz M; Andolfatto P ; et al. (2008) The evolution of gene regulation underlies a morphological difference between two Drosophila sister [...] 1 Additional References Rebeiz M; Ramos-Womack M; Jeong S (2009) Evolution of the tan locus contributed to pigment loss in Drosophila santomea: a response to Matute [...]	GP00001101	t Q9W369	Morphology	san MSE del212 (212bp deletion)	Drosophila yakuba (species)	Drosophila santomea (species) D	tan	Drosophila santomea (species)	Published - Accepted by Curator
TAS1R1	Taste sensitivity (umami)	Coding, Deletion N	Ailurus fulgens lesser panda - (species) D	Interspecific	Candidate Gene	Hu Y; Wu Q; Ma S ; et al. (2017) Comparative genomics reveals convergent evolution between the bamboo-eating giant and red pandas.	GP00001415	Tas1r1 Q99PG6	Physiology	1bp deletion (deletion of a C) in the sixth exon; N	Ursus maritimus polar bear - (species)	Ailurus fulgens lesser panda - (species) D	TAS1R1	Ailurus fulgens lesser panda - (species)	Published - Accepted by Curator
TAS1R1	Taste sensitivity (umami)	Coding, Deletion N	Ailuropoda melanoleuca giant panda - (species) D	Interspecific	Candidate Gene	Li R; Fan W; Tian G ; et al. (2010) The sequence and de novo assembly of the giant panda genome. 2 Additional References Hu Y; Wu Q; Ma S (2017) Comparative genomics reveals convergent evolution between the bamboo-eating giant and red pandas. Zhao H; Yang JR; Xu H (2010) Pseudogenization of the umami taste receptor gene Tas1r1 in the giant panda coincided with its dieta[...]	GP00001416	Tas1r1 Q99PG6	Physiology	pseudogene due to three indel mutations in the third and sixth exons. The giant panda has one 2-bp insertion on the third exon and two deletions (6-bp and 4-bp) on the sixth exon, N	Ursus maritimus polar bear - (species)	Ailuropoda melanoleuca giant panda - (species) D	TAS1R1	Ailuropoda melanoleuca giant panda - (species)	Published - Accepted by Curator
TAS1R2	Taste sensitivity (sugar)	Coding, Deletion N	Felidae cat family - (family) D	Intergeneric or Higher	Candidate Gene	Li X; Li W; Wang H ; et al. (2005) Pseudogenization of a sweet-receptor gene accounts for cats' indifference toward sugar. 1 Additional References Li X; Li W; Wang H (2006) Cats lack a sweet taste receptor.	GP00001109	TAS1R2 Q8TE23	Physiology	247bp deletion in exon 3 and stop codons in exons 4 and 6. N	Mammalia mammals - (class)	Felidae cat family - (family) D	TAS1R2	Felidae cat family - (family)	Published - Accepted by Curator
TBXT	Organ size (tail; short)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Candidate Gene	Buckingham KJ; McMillin MJ; Brassil MM ; et al. (2013) Multiple mutant T alleles cause haploinsufficiency of Brachyury and short tails in Manx cats.	GP00002290	Tbxt P20293	Morphology	c.1169delC N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	TBXT	Felis catus domestic cat - (species)	Published - Accepted by Curator
TBXT	Organ size (tail; short)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Candidate Gene	Buckingham KJ; McMillin MJ; Brassil MM ; et al. (2013) Multiple mutant T alleles cause haploinsufficiency of Brachyury and short tails in Manx cats.	GP00002291	Tbxt P20293	Morphology	c.1199delC N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	TBXT	Felis catus domestic cat - (species)	Published - Accepted by Curator
TBXT	Organ size (tail; short)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Candidate Gene	Buckingham KJ; McMillin MJ; Brassil MM ; et al. (2013) Multiple mutant T alleles cause haploinsufficiency of Brachyury and short tails in Manx cats.	GP00002292	Tbxt P20293	Morphology	c.998delT N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	TBXT	Felis catus domestic cat - (species)	Published - Accepted by Curator
THOUSAND-GRAIN WEIGHT 6 (TGW6)	Grain yield	Coding, Deletion N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Ishimaru K; Hirotsu N; Madoka Y ; et al. (2013) Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yie[...]	GP00001126	TGW6 Q69U01	Morphology	-1bp at +313 resulting in truncated protein N	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	THOUSAND-GRAIN WEIGHT 6 (TGW6)	Oryza sativa rice - (species)	Published - Accepted by Curator
Tva	Pathogen resistance (virus)	Coding, Deletion N	Gallus gallus chicken - (species) D	Intraspecific	Candidate Gene	Chen W; Liu Y; Li H ; et al. (2015) Intronic deletions of tva receptor gene decrease the susceptibility to infection by avian sarcoma an[...]	GP00002258	tva Q6JBY7	Physiology	c.502_511delCGCTCACCCC N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Tva	Gallus gallus chicken - (species)	Published - Accepted by Curator
Tva	Pathogen resistance (virus)	Coding, Deletion N	Gallus gallus chicken - (species) D	Intraspecific	Candidate Gene	Chen W; Liu Y; Li H ; et al. (2015) Intronic deletions of tva receptor gene decrease the susceptibility to infection by avian sarcoma an[...]	GP00002259	tva Q6JBY7	Physiology	c.502_516delCGCTCACCCCGCCCC N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Tva	Gallus gallus chicken - (species)	Published - Accepted by Curator
Tva	Pathogen resistance (virus)	Coding, Deletion N	Gallus gallus chicken - (species) D	Intraspecific	Candidate Gene	Reinišová M; Plachý J; Trejbalová K ; et al. (2012) Intronic deletions that disrupt mRNA splicing of the tva receptor gene result in decreased susceptib[...]	GP00002260	tva Q6JBY7	Physiology	c.506-515del10 ; splicing N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Tva	Gallus gallus chicken - (species)	Published - Accepted by Curator
Tva	Pathogen resistance (virus)	Coding, Deletion N	Gallus gallus chicken - (species) D	Intraspecific	Candidate Gene	Reinišová M; Plachý J; Trejbalová K ; et al. (2012) Intronic deletions that disrupt mRNA splicing of the tva receptor gene result in decreased susceptib[...]	GP00002261	tva Q6JBY7	Physiology	c.507-511del5 ; splicing N	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	Tva	Gallus gallus chicken - (species)	Published - Accepted by Curator
tyrosinase (TYR)	Coloration (feathers)	Coding, Deletion	Gallus gallus chicken - (species) D	Domesticated	Candidate Gene	Tobita-Teramoto T; Jang GY; Kino K ; et al. (2000) Autosomal albino chicken mutation (ca/ca) deletes hexanucleotide (-deltaGACTGG817) at a copper-bindi[...]	GP00002308	Tyr P11344	Morphology	c.817_822del6 p.237-238delDW	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	tyrosinase (TYR)	Gallus gallus chicken - (species)	Published - Accepted by Curator
tyrosinase (TYR)	Coloration (coat)	Coding, Deletion	Mustela putorius furo domestic ferret - (subspecies) D	Domesticated	Linkage Mapping	Blaszczyk WM; Distler C; Dekomien G ; et al. (2007) Identification of a tyrosinase (TYR) exon 4 deletion in albino ferrets (Mustela putorius furo).	GP00002310	Tyr P11344	Morphology	Deletion of exon 4 as detected by Southern Blot	Mustela putorius furo domestic ferret - (subspecies)	Mustela putorius furo domestic ferret - (subspecies) D	tyrosinase (TYR)	Mustela putorius furo domestic ferret - (subspecies)	Published - Accepted by Curator
tyrosinase (TYR)	Coloration (coat)	Coding, Deletion N	Felis catus domestic cat - (species) D	Domesticated	Candidate Gene	Imes DL; Geary LA; Grahn RA ; et al. (2006) Albinism in the domestic cat (Felis catus) is associated with a tyrosinase (TYR) mutation.	GP00002312	Tyr P11344	Morphology	a cytosine deletion in TYR at position 975 in exon 2 N	Felis catus domestic cat - (species)	Felis catus domestic cat - (species) D	tyrosinase (TYR)	Felis catus domestic cat - (species)	Published - Accepted by Curator
tyrosinase (TYR)	Coloration (skin)	Coding, Deletion	Megaptera novaeangliae humpback whale - (species) D	Intraspecific	Candidate Gene	Polanowski AM; Robinson-Laverick SM; Paton D ; et al. (2012 Jan-Feb) Variation in the tyrosinase gene associated with a white humpback whale (Megaptera novaeangliae).	GP00002314	Tyr P11344	Morphology	(264 del C) at codon 88	Megaptera novaeangliae humpback whale - (species)	Megaptera novaeangliae humpback whale - (species) D	tyrosinase (TYR)	Megaptera novaeangliae humpback whale - (species)	Published - Accepted by Curator
tyrosinase (TYR)	Coloration (coat; albinism)	Coding, Deletion N	Nyctereutes procyonoides viverrinus (subspecies) D	Intraspecific	Candidate Gene	Mae Y; Nagara K; Miyazaki M ; et al. (2020) Complex intragene deletion leads to oculocutaneous albinism in tanuki (Japanese raccoon dog).	GP00002374	Tyr P11344	Morphology	"We examined the structure and nucleotide sequence of TYR in an albino tanuki and found that the third exon was removed due to a deletion of approximately 11 kb. In addition, two nonsynonymous nucleotide substitutions were found in the fifth exon. These mutations are possible causes of the albino phenotype; however, the order of occurrence is unclear. Even if the 11-kb deletion was not the first of these mutations, it is considered to cause a total loss of the tyrosinase function because the third exon carries codons for one of the two copper-binding sites of tyrosinase and these sites are essential for the enzyme function. Intriguingly, the deletion was not a simple removal of an 11-kb segment: an internal portion was retained as a segment in the reverse orientation. We propose possible formation processes for this mutation that involve multiple DNA scission events, or an inversion followed by a deletion." N	Nyctereutes procyonoides viverrinus (subspecies)	Nyctereutes procyonoides viverrinus (subspecies) D	tyrosinase (TYR)	Nyctereutes procyonoides viverrinus (subspecies)	Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)	Coloration (coat)	Coding, Deletion	Canis lupus familiaris dog - (subspecies) D	Domesticated	Candidate Gene	Schmutz SM; Berryere TG; Goldfinch AD (2002) TYRP1 and MC1R genotypes and their effects on coat color in dogs.	GP00001146	Tyrp1 P07147	Morphology	deletion of a proline residue in exon 5 (345delP)	Canis lupus gray wolf - (species)	Canis lupus familiaris dog - (subspecies) D	tyrosinase-related protein 1 (TYRP1)	Canis lupus familiaris dog - (subspecies)	Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)	Coloration (feathers)	Coding, Deletion N	Columba livia rock pigeon - (species) D	Domesticated	Linkage Mapping	Domyan ET; Guernsey MW; Kronenberg Z ; et al. (2014) Epistatic and combinatorial effects of pigmentary gene mutations in the domestic pigeon.	GP00001151	Tyrp1 P07147	Morphology	7-bp deletion 411-418del resulting in null allele N	Columba livia rock pigeon - (species)	Columba livia rock pigeon - (species) D	tyrosinase-related protein 1 (TYRP1)	Columba livia rock pigeon - (species)	Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)	Coloration (coat)	Coding, Deletion	Sus scrofa domesticus domestic pig - (subspecies) D	Domesticated	Candidate Gene	Wu X; Zhang Y; Shen L ; et al. (2016) A 6-bp deletion in exon 8 and two mutations in introns of TYRP1 are associated with blond coat color[...]	GP00001327	Tyrp1 P07147	Morphology	g.17599_17604del 6bp deletion in exon 8 resulting in deletion of Met and Gly residues at positions 495 and 496 in TYRP1 protein ; c.1484_1489del6 p.Met495_Gly496del	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies) D	tyrosinase-related protein 1 (TYRP1)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
tyrosinase-related protein 1 (TYRP1)	Coloration (coat)	Coding, Deletion N	Ovis aries sheep - (species) D	Domesticated	Linkage Mapping	Paris JM; Letko A; Häfliger IM ; et al. (2019) Identification of two TYRP1 loss-of-function alleles in Valais Red sheep.	GP00002238	Tyrp1 P07147	Morphology	c.86_87delGA p.(Glu29ValfsTer5) N	Ovis aries sheep - (species)	Ovis aries sheep - (species) D	tyrosinase-related protein 1 (TYRP1)	Ovis aries sheep - (species)	Published - Accepted by Curator
Ubiquitin-specific peptidase 46 (Usp46)	Escape behavior (immobility in inescapable situations)	Coding, Deletion	Mus musculus house mouse - (species) D	Intraspecific	Linkage Mapping	Tomida S; Mamiya T; Sakamaki H ; et al. (2009) Usp46 is a quantitative trait gene regulating mouse immobile behavior in the tail suspension and for[...]	GP00001159	Usp46 P62069	Behavior	1a.a. deletion	Mus musculus house mouse - (species)	Mus musculus house mouse - (species) D	Ubiquitin-specific peptidase 46 (Usp46)	Mus musculus house mouse - (species)	Published - Accepted by Curator
UGT86 (Bm-UGT10286)	Coloration (cocoon)	Gene Loss, Deletion N	Bombyx mori domestic silkworm - (species) D	Domesticated	Linkage Mapping	Daimon T; Hirayama C; Kanai M ; et al. (2010) The silkworm Green b locus encodes a quercetin 5-O-glucosyltransferase that produces green cocoons w[...] 1 Additional References Xu X; Wang M; Wang Y (2013) Green cocoons in silkworm Bombyx mori resulting from the quercetin 5-O-glucosyltransferase of UGT86,[...]	GP00001160	Bm-UGT10286 D6RUU6	Physiology	38kb gene deletion N	Bombyx (genus)	Bombyx mori domestic silkworm - (species) D	UGT86 (Bm-UGT10286)	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
Ugt86Dd	Xenobiotic resistance (nicotine ; larval stage)	Coding, Deletion N	Drosophila melanogaster fruit fly - (species) D	Intraspecific	Association Mapping	Marriage TN; King EG; Long AD ; et al. (2014) Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cr[...] 1 Additional References Highfill CA; Tran JH; Nguyen SKT (2017) Naturally Segregating Variation at Ugt86Dd Contributes to Nicotine Resistance in Drosophila melanoga[...]	GP00001406	Ugt86Dd Q9VGT8	Physiology	22-bp frameshift deletion in Ugt86Dd - CRISPR-induced deletions in Ugt86Dd lead to a large reduction in resistance N	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species) D	Ugt86Dd	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Uncoupling protein 1 (UCP1)	Thermoregulation (brown adipose tissue)	Coding, Deletion N	Sus (genus) D	Intergeneric or Higher	Candidate Gene	Berg F; Gustafson U; Andersson L (2006) The uncoupling protein 1 gene (UCP1) is disrupted in the pig lineage: a genetic explanation for poor[...]	GP00001162	Ucp1 P12242	Physiology	deletion of exons 3 to 5 N	Mammalia mammals - (class)	Sus (genus) D	Uncoupling protein 1 (UCP1)	Sus (genus)	Published - Accepted by Curator
VRN1	Flowering time	Cis-regulatory, Deletion	Triticum aestivum bread wheat - (species) D	Domesticated	Linkage Mapping	Trevaskis B; Bagnall DJ; Ellis MH ; et al. (2003) MADS box genes control vernalization-induced flowering in cereals.	GP00001184	VRN1 Q8L3W1	Physiology	Deletion	Triticum aestivum bread wheat - (species)	Triticum aestivum bread wheat - (species) D	VRN1	Triticum aestivum bread wheat - (species)	Published - Accepted by Curator
VRN2	Flowering time	Gene Loss, Deletion N	Hordeum vulgare (species)	Domesticated	Linkage Mapping	Yan L; Loukoianov A; Blechl A ; et al. (2004) The wheat VRN2 gene is a flowering repressor down-regulated by vernalization.	GP00001186	VRN2 Q8W5B1	Physiology	Large deletion N	Hordeum vulgare (species)	Hordeum vulgare (species)	VRN2	Hordeum vulgare (species)	Published - Accepted by Curator
VRN2	Flowering time	Gene Loss, Deletion N	Triticum monococcum (species) D	Domesticated	Candidate Gene	Yan L; Loukoianov A; Blechl A ; et al. (2004) The wheat VRN2 gene is a flowering repressor down-regulated by vernalization.	GP00001188	VRN2 Q8W5B1	Physiology	Large deletion; complete deletion of ZCCT1 and ZCCT2=VRN2 genes N	Triticum monococcum (species)	Triticum monococcum (species) D	VRN2	Triticum monococcum (species)	Published - Accepted by Curator
VRS1 = SIX-ROWED SPIKE 1	Plant architecture Inflorescence architecture	Coding, Deletion N	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Komatsuda T; Pourkheirandish M; He C ; et al. (2007) Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene. 1 Additional References Ramsay L; Comadran J; Druka A (2011) INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domes[...]	GP00001189	Vrs1 A1IHK8	Morphology Morphology	1bp deletion resulting in frameshift N	Hordeum vulgare (species)	Hordeum vulgare (species) D	VRS1 = SIX-ROWED SPIKE 1	Hordeum vulgare (species)	Published - Accepted by Curator
VvMYBA1	Coloration (fruit)	Cis-regulatory, Deletion	Vitis vinifera wine grape - (species) D	Domesticated	Candidate Gene	Kobayashi S; Goto-Yamamoto N; Hirochika H (2004) Retrotransposon-induced mutations in grape skin color. 1 Additional References Migliaro D; Crespan Manna; Muñoz‐Organero G (2014 ) Structural dynamics at the berry colour locus in V itis vinifera L. somatic variants	GP00001194	VvmybA1 Q6L973	Morphology	Gret1 retrotransposon deletion; leaving behind its 3'-LTR flanked by 5 bp of a duplicated target site	Vitis vinifera wine grape - (species)	Vitis vinifera wine grape - (species) D	VvMYBA1	Vitis vinifera wine grape - (species)	Published - Accepted by Curator
VvMYBA1	Coloration (fruit)	Cis-regulatory, Deletion	Vitis vinifera wine grape - (species) D	Domesticated	Candidate Gene	Ferreira V; Matus JT; Pinto-Carnide O ; et al. (2019) Genetic analysis of a white-to-red berry skin color reversion and its transcriptomic and metabolic c[...]	GP00002096	VvmybA1 Q6L973	Morphology	partial excision of the Gret1 retrotransposon from the promoter region of the MYBA1 anthocyanin regulator - associated with white-to-red berry skin color reversion	Vitis vinifera wine grape - (species)	Vitis vinifera wine grape - (species) D	VvMYBA1	Vitis vinifera wine grape - (species)	Published - Accepted by Curator
VvMYBA1	Coloration (fruit)	Other, Deletion	Vitis vinifera wine grape - (species) D	Domesticated	Candidate Gene	Azuma A; Kobayashi S; Goto-Yamamoto N ; et al. (2009) Color recovery in berries of grape (Vitis vinifera L.) 'Benitaka', a bud sport of 'Italia', is cause[...]	GP00002099	VvmybA1 Q6L973	Morphology	homologous recombination between the non-functional allele of MybA1 and the truncated MybA3 gene at their promoter region, resulting in the recovery of MybA1 genomic integrity (and therefore its transcription) on cv. ‘Benitaka’. The VvmybA1 locus of 'Benitaka' is heterozygous for the VvmybA1a allele (non-functional) and a novel VvmybA1(BEN) allele. VvmybA1(BEN) restores VvmybA1 transcripts.	Vitis vinifera wine grape - (species)	Vitis vinifera wine grape - (species) D	VvMYBA1	Vitis vinifera wine grape - (species)	Published - Accepted by Curator
VvMYBA2	Coloration (fruit)	2 Mutations: Coding N	Vitis vinifera wine grape - (species) D	Domesticated	Linkage Mapping	Fournier-Level A; Le Cunff L; Gomez C ; et al. (2009) Quantitative genetic bases of anthocyanin variation in grape (Vitis vinifera L. ssp. sativa) berry: [...]	GP00001195	VvmybA2 Q6L9M8	Morphology	2 mutations	Vitis vinifera wine grape - (species)	Vitis vinifera wine grape - (species) D	VvMYBA2	Vitis vinifera wine grape - (species)	Published - Accepted by Curator
Waxy /GBSS	Amylose content	Cis-regulatory, Deletion	Hordeum vulgare (species) D	Domesticated	Linkage Mapping	Domon E; Fuijita M; Ishikawa N (2002) The insertion/deletion polymorphisms in the waxy gene of barley genetic resources from East Asia.	GP00001197	waxy Q8L699	Physiology	403-bp deletion spanning from position –129 bp to position +274 relative to the deduced starting point of transcription in the barley waxy gene and	Hordeum vulgare (species)	Hordeum vulgare (species) D	Waxy /GBSS	Hordeum vulgare (species)	Published - Accepted by Curator
Waxy /GBSS	Amylose content	Cis-regulatory, Deletion	Setaria italica foxtail millet - (species) D	Domesticated	Candidate Gene	Kawase M; Fukunaga K; Kato K (2005) Diverse origins of waxy foxtail millet crops in East and Southeast Asia mediated by multiple transpo[...]	GP00001203	waxy Q8L699	Physiology	2.4kb deletion (intron 1)	Setaria italica foxtail millet - (species)	Setaria italica foxtail millet - (species) D	Waxy /GBSS	Setaria italica foxtail millet - (species)	Published - Accepted by Curator
WDR1	Coloration (flowers; seeds; stems)	Coding, Deletion N	Ipomoea nil Japanese morning glory - (species) D	Domesticated	Candidate Gene	Morita Y; Saitoh M; Hoshino A ; et al. (2006) Isolation of cDNAs for R2R3-MYB, bHLH and WDR transcriptional regulators and identification of c and[...]	GP00002090	InWDR1 Q1JUZ7	Morphology	frameshift mutation caused by a 7 bp insertion in the gene encoding a WDR transcriptional regulator N	Ipomoea nil Japanese morning glory - (species)	Ipomoea nil Japanese morning glory - (species) D	WDR1	Ipomoea nil Japanese morning glory - (species)	Published - Accepted by Curator
Wnt1	Coloration (larval color pattern)	Cis-regulatory, Deletion	Bombyx mori domestic silkworm - (species) D	Domesticated	Association Mapping	Tong X; Han MJ; Lu K ; et al. (2022) High-resolution silkworm pan-genome provides genetic insights into artificial selection and ecologic[...]	GP00002403	wg P09615	Morphology	A specific large deletion (271 kb) is present in the 3′-flanking region of Wnt1. Wnt1 expression is significantly higher in the epidermis of heterozygous LC (LC/+) mutants than in normal strains (+/+).	Bombyx mori domestic silkworm - (species)	Bombyx mori domestic silkworm - (species) D	Wnt1	Bombyx mori domestic silkworm - (species)	Published - Accepted by Curator
Xmrk	Hybrid incompatibility (melanoma)	Gene Loss, Deletion N	Xiphophorus malinche highland swordtail - (species) D	Interspecific	Association Mapping	Powell DL; García-Olazábal M; Keegan M ; et al. (2020) Natural hybridization reveals incompatible alleles that cause melanoma in swordtail fish.	GP00002137	xmrk P13388	Physiology	Loss of Xmrk in several Xiphophorus species N	Xiphophorus birchmanni sheepshead swordtail - (species)	Xiphophorus malinche highland swordtail - (species) D	Xmrk	Xiphophorus malinche highland swordtail - (species)	Published - Accepted by Curator
zfl2	Flowering time	Coding, Deletion	Zea mays (species) D	Domesticated	Linkage Mapping	Buckler ES; Holland JB; Bradbury PJ ; et al. (2009) The genetic architecture of maize flowering time.	GP00001226	zfl2 Q5Q1L6	Physiology	16a.a. deletion	Zea mays (species)	Zea mays (species) D	zfl2	Zea mays (species)	Published - Accepted by Curator
zic1/zic4	Fin morphology (skeleton; caudal fin)	Cis-regulatory, Deletion	Betta splendens Siamese fighting fish - (species) D	Domesticated	Linkage Mapping	Wang L; Sun F; Wan ZY ; et al. (2021) Genomic Basis of Striking Fin Shapes and Colors in the Fighting Fish.	GP00002385	Zic1 P46684	Morphology	"We further sequenced the genomes of both homozygous single- and double-tail fish and found in double tail no large sequence variation except for a ∼180-bp deletion ∼15-kb downstream of zic4 (fig. 4C and supplementary fig. S19a, Supplementary Material online). This deletion was located in a cluster of CNEs and coincided with predicted CNE.006008 (supplementary fig. S19b, Supplementary Material online)." "We observed that the wild-type ST allele significantly enhanced green fluorescent protein (GFP) expression in embryos at 24 hpf, when both zic1 and zic4 show differential expression between double-tail and wild-type fish (Moriyama et al. 2012), whereas no visible GFP expression was detected for the st allele (fig. 4E and supplementary table S11, Supplementary Material online). The efficiency of the two alleles as candidate enhancers was further examined using a Dual-Luciferase Reporter Assay, which showed that the ST allele enhanced luciferase expression by ∼10× relative to st allele in Singapore grouper embryonic cell line (fig. 4F)." "Finally, we deleted this enhancer using the CRISPR-Cas9 system in fighting fish. Considering the efficiency of tested gRNAs and the cluster of CNEs that could have unpredicted functions, we limited the modification to the CNE.006008 region and did not involve the other CNEs (supplementary fig. S20, Supplementary Material online). Genetic analysis revealed that none of these fish had completely deleted CNE.006008, suggesting nonsimultaneous cutting at multiple targeted gRNA positions. These mosaic fish (n = 7) had significantly more fin rays than the noninjected controls (P < 0.01; fig. 4G). "	Betta splendens Siamese fighting fish - (species)	Betta splendens Siamese fighting fish - (species) D	zic1/zic4	Betta splendens Siamese fighting fish - (species)	Published - Accepted by Curator