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)
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
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
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
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
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)
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
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
AtGA20ox1 (=GA5=Sd1)
Plant size (dwarfism)
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Domesticated
Linkage Mapping
Barboza L; Effgen S; Alonso-Blanco C ; et al. (2013)
Arabidopsis semidwarfs evolved from independent mutations in GA20ox1, ortholog to green revolution d[...]
GP00000106
GA20OX1
Q39110
Morphology
Whole gene deletion N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
AtGA20ox1 (=GA5=Sd1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
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)
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
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
Cf-2.1 and Cf-2.2
Pathogen resistance (leaf mold fungus ; root parasitic nematode)
Gene Loss,
Deletion
N
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Dixon MS; Jones DA; Keddie JS ; et al. (1996)
The tomato Cf-2 disease resistance locus comprises two functional genes encoding leucine-rich repeat[...]
2 Additional References
GP00000180
Q41398
Physiology
loss of the two genes Cf-2.1 and Cf-2.2 (see Dixon et al. 1998) in cultivated tomato - resistance re-acquired from related species N
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species) D
Cf-2.1 and Cf-2.2
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
Cf-4/9
Pathogen resistance
Gene Loss,
Complex Change
Solanum lycopersicum
tomato - (species)
Domesticated
Linkage Mapping
Parniske M; Hammond-Kosack KE; Golstein C ; et al. (1997)
Novel disease resistance specificities result from sequence exchange between tandemly repeated genes[...]
GP00000181
Cf-4A
Q7DLS4
Physiology
partial loss of two gene coding regions located in tandem; resulting in a chimeric gene
Solanum pimpinellifolium
(species)
Solanum lycopersicum
tomato - (species)
Cf-4/9
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
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
CYP79D15
Toxicity levels (cyanogenic glucoside)
Gene Loss,
Deletion
N
Trifolium repens
white clover - (species) D
Intraspecific
Linkage Mapping
Olsen KM; Hsu SC; Small LL (2008)
Evidence on the molecular basis of the Ac/ac adaptive cyanogenesis polymorphism in white clover (Tri[...]
1 Additional References
GP00000211
CYP79D15
B2Y2T9
Physiology
Gene deletion N
Trifolium repens
white clover - (species)
Trifolium repens
white clover - (species) D
CYP79D15
Trifolium repens
white clover - (species)
Published - Accepted by Curator
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
flavonoid 3';5'-hydroxylase (F3'5'H)
Coloration (flowers)
Gene Loss,
Complex Change
N
Iochroma cyaneum
(species)
Interspecific
Linkage Mapping
Smith SD; Rausher MD (2011)
Gene loss and parallel evolution contribute to species difference in flower color.
GP00000324
CYP75A2
P37120
Morphology
Large deletion N
Iochroma cyaneum
(species)
Iochroma cyaneum
(species)
flavonoid 3';5'-hydroxylase (F3'5'H)
Iochroma cyaneum
(species)
Published - Accepted by Curator
FLM (MAF1)
Flowering time
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Werner JD; Borevitz JO; Warthmann N ; et al. (2005)
Quantitative trait locus mapping and DNA array hybridization identify an FLM deletion as a cause for[...]
GP00000341
AGL27
Q9AT76
Physiology
Deletion of entire gene N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
FLM (MAF1)
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
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
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
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
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
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
Hs1 = pro-1
Pathogen resistance (parasite, nematodes) (nematodes)
Gene Loss,
Complex Change
N
Beta vulgaris
(species)
Domesticated
Linkage Mapping
Cai D; Kleine M; Kifle S ; et al. (1997)
Positional cloning of a gene for nematode resistance in sugar beet.
GP00000490
HSPRO1
Q9LY61
Physiology
cDNA sequence lacking in genomic DNA N
Patellifolia
(genus)
Beta vulgaris
(species)
Hs1 = pro-1
Beta vulgaris
(species)
Published - Accepted by Curator
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
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
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
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
LEU2
Xenobiotic resistance
Gene Loss,
Complex Change
N
Saccharomyces cerevisiae
baker's yeast - (species)
Domesticated
Linkage Mapping
Perlstein EO; Ruderfer DM; Roberts DC ; et al. (2007)
Genetic basis of individual differences in the response to small-molecule drugs in yeast.
GP00000542
LEU2
P04173
Physiology
Deletion N
Saccharomyces cerevisiae
baker's yeast - (species)
Saccharomyces cerevisiae
baker's yeast - (species)
LEU2
Saccharomyces cerevisiae
baker's yeast - (species)
Published - Accepted by Curator
Linamarase
Toxicity levels (cyanogenic glucoside)
Gene Loss,
Deletion
N
Trifolium repens
white clover - (species) D
Intraspecific
Linkage Mapping
Olsen KM; Hsu SC; Small LL (2008)
Evidence on the molecular basis of the Ac/ac adaptive cyanogenesis polymorphism in white clover (Tri[...]
1 Additional References
GP00000549
LI
P26205
Physiology
Gene deletion N
Trifolium repens
white clover - (species)
Trifolium repens
white clover - (species) D
Linamarase
Trifolium repens
white clover - (species)
Published - Accepted by Curator
MC1R
Coloration (coat)
Gene Loss,
Complex Change
N
Cavia porcellus
domestic guinea pig - (species) D
Domesticated
Candidate Gene
Cone RD; Lu D; Koppula S ; et al. (1996)
The melanocortin receptors: agonists, antagonists, and the hormonal control of pigmentation.
GP00000575
MC1R
Q01726
Morphology
Deletion of part or all of gene N
Cavia porcellus
domestic guinea pig - (species)
Cavia porcellus
domestic guinea pig - (species) D
MC1R
Cavia porcellus
domestic guinea pig - (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
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
PAP1
Coloration (anthocyanin accumulation under high-light and low-temperature stress)
Gene Loss,
Deletion
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Ilk N; Ding J; Ihnatowicz A ; et al. (2015)
Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...]
1 Additional References
GP00001232
MYB75
Q9FE25
Physiology
several deletions in the promoter; first intron; second exon and 3' UTR region (putative loss of function) N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
PAP1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
peel-1/zeel-1
Hybrid incompatibility
Gene Loss,
Deletion
N
Caenorhabditis elegans
(species) D
Intraspecific
Linkage Mapping
Seidel HS; Rockman MV; Kruglyak L (2008)
Widespread genetic incompatibility in C. elegans maintained by balancing selection.
1 Additional References
GP00001320
peel-1
G5EGC6
Physiology
19kb deletion N
Caenorhabditis elegans
(species)
Caenorhabditis elegans
(species) D
peel-1/zeel-1
Caenorhabditis elegans
(species)
Published - Accepted by Curator
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
Pore-forming toxin-like (PFT)
Pathogen resistance (Fusarium)
Gene Loss,
Indel
N
Triticum aestivum
bread wheat - (species)
Intraspecific
Linkage Mapping
Rawat N; Pumphrey MO; Liu S ; et al. (2016)
Wheat Fhb1 encodes a chimeric lectin with agglutinin domains and a pore-forming toxin-like domain co[...]
GP00001563
Q4JEV5
Physiology
PFT gene is present and constitutively expressed in resistant line and absent in susceptible line N
Triticum aestivum
bread wheat - (species)
Triticum aestivum
bread wheat - (species)
Pore-forming toxin-like (PFT)
Triticum aestivum
bread wheat - (species)
Published - Accepted by Curator
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
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
ripening inhibitor (rin) = LeMADS-RIN and LeMADS-MC
Fruit ripening
Gene Loss,
Deletion
Solanum lycopersicum
tomato - (species) D
Domesticated
Linkage Mapping
Vrebalov J; Ruezinsky D; Padmanabhan V ; et al. (2002)
A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (rin) locus.
1 Additional References
GP00000990
MADS-RIN
Q8S4L4
Physiology
2.6kb deletion of the region located between gene LeMADS-RIN and gene LeMADS-MC; resulting in a chimeric mRNA that contains both LeMADS-RIN and LeMADS-MC coding regions.
Solanum lycopersicum
tomato - (species)
Solanum lycopersicum
tomato - (species) D
ripening inhibitor (rin) = LeMADS-RIN and LeMADS-MC
Solanum lycopersicum
tomato - (species)
Published - Accepted by Curator
RLM1
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Staal J; Kaliff M; Bohman S ; et al. (2006)
Transgressive segregation reveals two Arabidopsis TIR-NB-LRR resistance genes effective against Lept[...]
GP00000991
RLM1A
F4I594
Physiology
Digenic; deletion of gene1 and premature stop codons in gene2 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RLM1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RLM2 cluster
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Staal J; Kaliff M; Bohman S ; et al. (2006)
Transgressive segregation reveals two Arabidopsis TIR-NB-LRR resistance genes effective against Lept[...]
GP00000992
RLM1B
Q9CAK1
Physiology
the locus contains two paralogues; one of which is deleted and the other pseudogenized in Ler-0 N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RLM2 cluster
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RLM3
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Staal J; Kaliff M; Dewaele E ; et al. (2008)
RLM3, a TIR domain encoding gene involved in broad-range immunity of Arabidopsis to necrotrophic fun[...]
GP00000993
RLM3
Q9FT77
Physiology
gene deletion N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RLM3
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPM1
Pathogen resistance
Gene Loss,
Indel
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Grant MR; McDowell JM; Sharpe AG ; et al. (1998)
Independent deletions of a pathogen-resistance gene in Brassica and Arabidopsis.
2 Additional References
GP00001000
RPM1
Q39214
Physiology
3.7kb indel with a null-state in the sensitive strains N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPM1
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
RPM1
Pathogen resistance
Gene Loss,
Complex Change
N
Brassica napus
rape - (species)
Intraspecific
Linkage Mapping
Grant MR; McDowell JM; Sharpe AG ; et al. (1998)
Independent deletions of a pathogen-resistance gene in Brassica and Arabidopsis.
GP00001001
RPM1
Q39214
Physiology
deletion N
Brassica napus
rape - (species)
Brassica napus
rape - (species)
RPM1
Brassica napus
rape - (species)
Published - Accepted by Curator
RPS5
Pathogen resistance
Gene Loss,
Complex Change
N
Arabidopsis thaliana
thale cress - (species)
Intraspecific
Linkage Mapping
Henk AD; Warren RF; Innes RW (1999)
A new Ac-like transposon of Arabidopsis is associated with a deletion of the RPS5 disease resistance[...]
1 Additional References
GP00001014
RPS5
O64973
Physiology
Deletion N
Arabidopsis thaliana
thale cress - (species)
Arabidopsis thaliana
thale cress - (species)
RPS5
Arabidopsis thaliana
thale cress - (species)
Published - Accepted by Curator
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
SIGLEC13
Pathogen resistance
Gene Loss,
Complex Change
N
Homo sapiens
human - (species)
Interspecific
Candidate Gene
Wang X; Mitra N; Secundino I ; et al. (2012)
Specific inactivation of two immunomodulatory SIGLEC genes during human evolution.
GP00001052
SIGLEC13
Q64JA4
Physiology
Gene deletion by Alu-mediated recombination N
Primates
(order)
Homo sapiens
human - (species)
SIGLEC13
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
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
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
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
UGT86 (Bm-UGT10286)
Coloration (cocoon)
Gene Loss,
Deletion
N
Bombyx mori
domestic silkworm - (species) D
Domesticated
Linkage Mapping
Daimon T; Hirayama C; Kanai M ; et al. (2010)
The silkworm Green b locus encodes a quercetin 5-O-glucosyltransferase that produces green cocoons w[...]
1 Additional References
GP00001160
Bm-UGT10286
D6RUU6
Physiology
38kb gene deletion N
Bombyx
(genus)
Bombyx mori
domestic silkworm - (species) D
UGT86 (Bm-UGT10286)
Bombyx mori
domestic silkworm - (species)
Published - Accepted by Curator
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
VvMybA1 VvMybA2 VvMybA3 and VvMybA4
Coloration (fruit)
Gene Loss,
Complex Change
N
Vitis vinifera
wine grape - (species) D
Domesticated
Candidate Gene
Carbonell-Bejerano P; Royo C; Torres-Pérez R ; et al. (2017)
Catastrophic Unbalanced Genome Rearrangements Cause Somatic Loss of Berry Color in Grapevine.
GP00002098
VvmybA3
Q6L9M7
Morphology
catastrophic genome rearrangement: intrachromosomal and interchromosomal translocations and the deletion of 313 genes including the loss of the functional copy for the MYB transcription factors required for anthocyanin pigmentation in the berry skin N
Vitis vinifera
wine grape - (species)
Vitis vinifera
wine grape - (species) D
VvMybA1 VvMybA2 VvMybA3 and VvMybA4
Vitis vinifera
wine grape - (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