Gephebase

Gephebase Search Results

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Your research retrieved 21 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
opsin - rhodopsin1 (RH1)	Color vision (blue shift)	Coding, SNP	undetermined Cottoidei 'Lake Baikal' (species)	Intergeneric or Higher	Candidate Gene	Hunt DM; Fitzgibbon J; Slobodyanyuk SJ ; et al. (1996) Spectral tuning and molecular evolution of rod visual pigments in the species flock of cottoid fish [...]	GP00000780	RHO P08100	Physiology	D83N; A292S	undetermined Cottoidei 'Lake Baikal' (species)	undetermined Cottoidei 'Lake Baikal' (species)	opsin - rhodopsin1 (RH1)	undetermined Cottoidei 'Lake Baikal' (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue shift)	Coding, SNP	undetermined Cottoidei 'Lake Baikal' (species)	Intergeneric or Higher	Candidate Gene	Hunt DM; Fitzgibbon J; Slobodyanyuk SJ ; et al. (1996) Spectral tuning and molecular evolution of rod visual pigments in the species flock of cottoid fish [...]	GP00000780	RHO P08100	Physiology	D83N; A292S	undetermined Cottoidei 'Lake Baikal' (species)	undetermined Cottoidei 'Lake Baikal' (species)	opsin - rhodopsin1 (RH1)	undetermined Cottoidei 'Lake Baikal' (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue shift)	Coding, SNP	Megaderma lyra Indian false vampire - (species) D	Intergeneric or Higher	Candidate Gene	Sugawara T; Imai H; Nikaido M ; et al. (2010) Vertebrate rhodopsin adaptation to dim light via rapid meta-II intermediate formation.	GP00000781	RHO P08100	Physiology	D83N	Chiroptera bats - (order)	Megaderma lyra Indian false vampire - (species) D	opsin - rhodopsin1 (RH1)	Megaderma lyra Indian false vampire - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue shift)	Coding, SNP	Sebastolobus altivelis (species) D	Intergeneric or Higher	Candidate Gene	Yokoyama S; Tada T; Yamato T (2007 Mar-Apr) Modulation of the absorption maximum of rhodopsin by amino acids in the C-terminus. 1 Additional References Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000782	RHO P08100	Physiology	D83N and A292S	Teleostei teleost fishes - (infraclass)	Sebastolobus altivelis (species) D	opsin - rhodopsin1 (RH1)	Sebastolobus altivelis (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue shift)	Coding, SNP	Sebastolobus altivelis (species) D	Intergeneric or Higher	Candidate Gene	Yokoyama S; Tada T; Yamato T (2007 Mar-Apr) Modulation of the absorption maximum of rhodopsin by amino acids in the C-terminus. 1 Additional References Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000782	RHO P08100	Physiology	D83N and A292S	Teleostei teleost fishes - (infraclass)	Sebastolobus altivelis (species) D	opsin - rhodopsin1 (RH1)	Sebastolobus altivelis (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue shift)	Coding, SNP	Flaveria trinervia (species)	Intergeneric or Higher	Candidate Gene	Sugawara T; Imai H; Nikaido M ; et al. (2010) Vertebrate rhodopsin adaptation to dim light via rapid meta-II intermediate formation.	GP00000783	RHO P08100	Physiology	D83N	Vespertilionidae common bats - (family)	Flaveria trinervia (species)	opsin - rhodopsin1 (RH1)	Flaveria trinervia (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Squamata squamates - (order) D	Intergeneric or Higher	Candidate Gene	Yokoyama S; Zhang H; Radlwimmer FB ; et al. (1999) Adaptive evolution of color vision of the Comoran coelacanth (Latimeria chalumnae). 1 Additional References Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000784	RHO P08100	Physiology	D83N	Amniota amniotes - (no rank)	Squamata squamates - (order) D	opsin - rhodopsin1 (RH1)	Squamata squamates - (order)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Orcinus orca killer whale - (species) D	Intergeneric or Higher	Candidate Gene	Dungan SZ; Kosyakov A; Chang BS (2016) Spectral Tuning of Killer Whale (Orcinus orca) Rhodopsin: Evidence for Positive Selection and Functi[...] 1 Additional References Meredith RW; Gatesy J; Emerling CA (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000785	RHO P08100	Physiology	D83N + A292S both have phenotypic effect	Bos taurus cattle - (species)	Orcinus orca killer whale - (species) D	opsin - rhodopsin1 (RH1)	Orcinus orca killer whale - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Orcinus orca killer whale - (species) D	Intergeneric or Higher	Candidate Gene	Dungan SZ; Kosyakov A; Chang BS (2016) Spectral Tuning of Killer Whale (Orcinus orca) Rhodopsin: Evidence for Positive Selection and Functi[...] 1 Additional References Meredith RW; Gatesy J; Emerling CA (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000785	RHO P08100	Physiology	D83N + A292S both have phenotypic effect	Bos taurus cattle - (species)	Orcinus orca killer whale - (species) D	opsin - rhodopsin1 (RH1)	Orcinus orca killer whale - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	African cichlids (no rank)	Intergeneric or Higher	Candidate Gene	Sugawara T; Terai Y; Imai H ; et al. (2005) Parallelism of amino acid changes at the RH1 affecting spectral sensitivity among deep-water cichlid[...] 1 Additional References Nagai H; Terai Y; Sugawara T (2011) Reverse evolution in RH1 for adaptation of cichlids to water depth in Lake Tanganyika.	GP00000786	RHO P08100	Physiology	A292S and reversals; many independent cases	African cichlids (no rank)	African cichlids (no rank)	opsin - rhodopsin1 (RH1)	African cichlids (no rank)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Tursiops truncatus bottlenose dolphin - (species)	Intergeneric or Higher	Candidate Gene	Fasick JI; Robsinson PR (1998) Mechanism of spectral tuning in the dolphin visual pigments. 2 Additional References Sugawara T; Imai H; Nikaido M (2010) Vertebrate rhodopsin adaptation to dim light via rapid meta-II intermediate formation. Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000787	RHO P08100	Physiology	D83N; A292S; A299S	Mammalia mammals - (class)	Tursiops truncatus bottlenose dolphin - (species)	opsin - rhodopsin1 (RH1)	Tursiops truncatus bottlenose dolphin - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Tursiops truncatus bottlenose dolphin - (species)	Intergeneric or Higher	Candidate Gene	Fasick JI; Robsinson PR (1998) Mechanism of spectral tuning in the dolphin visual pigments. 2 Additional References Sugawara T; Imai H; Nikaido M (2010) Vertebrate rhodopsin adaptation to dim light via rapid meta-II intermediate formation. Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000787	RHO P08100	Physiology	D83N; A292S; A299S	Mammalia mammals - (class)	Tursiops truncatus bottlenose dolphin - (species)	opsin - rhodopsin1 (RH1)	Tursiops truncatus bottlenose dolphin - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Tursiops truncatus bottlenose dolphin - (species)	Intergeneric or Higher	Candidate Gene	Fasick JI; Robsinson PR (1998) Mechanism of spectral tuning in the dolphin visual pigments. 2 Additional References Sugawara T; Imai H; Nikaido M (2010) Vertebrate rhodopsin adaptation to dim light via rapid meta-II intermediate formation. Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000787	RHO P08100	Physiology	D83N; A292S; A299S	Mammalia mammals - (class)	Tursiops truncatus bottlenose dolphin - (species)	opsin - rhodopsin1 (RH1)	Tursiops truncatus bottlenose dolphin - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Elephantidae elephants - (family)	Intergeneric or Higher	Candidate Gene	Yokoyama S; Takenaka N; Agnew DW ; et al. (2005) Elephants and human color-blind deuteranopes have identical sets of visual pigments. 1 Additional References Yokoyama S; Tada T; Zhang H (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...]	GP00000788	RHO P08100	Physiology	D83N	Mammalia mammals - (class)	Elephantidae elephants - (family)	opsin - rhodopsin1 (RH1)	Elephantidae elephants - (family)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Physeteridae sperm whales - (family)	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000789	RHO P08100	Physiology	K195T	Cetacea whales - (order)	Physeteridae sperm whales - (family)	opsin - rhodopsin1 (RH1)	Physeteridae sperm whales - (family)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Latimeria menadoensis Menado coelacanth - (species) D Latimeria chalumnae coelacanth - (species) D	Intergeneric or Higher	Candidate Gene	Yokoyama S; Tada T (2000) Adaptive evolution of the African and Indonesian coelacanths to deep-sea environments.	GP00000790	RHO P08100	Physiology	A292S; E122Q - both have an effect	Teleostei teleost fishes - (infraclass)	Latimeria menadoensis Menado coelacanth - (species) D Latimeria chalumnae coelacanth - (species) D	opsin - rhodopsin1 (RH1)	Latimeria menadoensis Menado coelacanth - (species) Latimeria chalumnae coelacanth - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Latimeria menadoensis Menado coelacanth - (species) D Latimeria chalumnae coelacanth - (species) D	Intergeneric or Higher	Candidate Gene	Yokoyama S; Tada T (2000) Adaptive evolution of the African and Indonesian coelacanths to deep-sea environments.	GP00000790	RHO P08100	Physiology	A292S; E122Q - both have an effect	Teleostei teleost fishes - (infraclass)	Latimeria menadoensis Menado coelacanth - (species) D Latimeria chalumnae coelacanth - (species) D	opsin - rhodopsin1 (RH1)	Latimeria menadoensis Menado coelacanth - (species) Latimeria chalumnae coelacanth - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Cetacea whales - (order)	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000791	RHO P08100	Physiology	D83N + A292S both have an effect	Mammalia mammals - (class)	Cetacea whales - (order)	opsin - rhodopsin1 (RH1)	Cetacea whales - (order)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (blue-shift)	Coding, SNP	Cetacea whales - (order)	Intergeneric or Higher	Candidate Gene	Meredith RW; Gatesy J; Emerling CA ; et al. (2013) Rod monochromacy and the coevolution of cetacean retinal opsins.	GP00000791	RHO P08100	Physiology	D83N + A292S both have an effect	Mammalia mammals - (class)	Cetacea whales - (order)	opsin - rhodopsin1 (RH1)	Cetacea whales - (order)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (red-shift)	Coding, SNP	Aristostomias scintillans shiny loosejaw - (species)	Intergeneric or Higher	Candidate Gene	Yokoyama S; Tada T; Zhang H ; et al. (2008) Elucidation of phenotypic adaptations: Molecular analyses of dim-light vision proteins in vertebrate[...] 1 Additional References Yokoyama S (2012) Synthesis of Experimental Molecular Biology and Evolutionary Biology: An Example from the World of V[...]	GP00000792	RHO P08100	Physiology	D83N; M183F; M253L; F261Y; T289G; S292I; M317I - all together shift to red (see table S4 of Yokoyama PNAS) - individual changes not tested	Stomiidae barbeled dragonfishes - (family)	Aristostomias scintillans shiny loosejaw - (species)	opsin - rhodopsin1 (RH1)	Aristostomias scintillans shiny loosejaw - (species)	Published - Accepted by Curator
opsin - rhodopsin1 (RH1)	Color vision (green-shift)	Coding, SNP	Stomoxys calcitrans stable fly - (species)	Intraspecific	Candidate Gene	Olafson PU; Aksoy S; Attardo GM ; et al. (2021) The genome of the stable fly, Stomoxys calcitrans, reveals potential mechanisms underlying reproduct[...]	GP00002535	RHO P08100	Physiology	Met>Leucine residue present at tuning site 17 which is extremely rare across insect LW opsins. In a survey of over 100 insect LW opsins it was detected only in the two corresponding Rh1 orthologs from M. domestica in addition to one in the distantly related species of thrips (Thysanoptera). The site is residue 17 based on the numbering system developed for butterflies which corresponds to residue 57 in Drosophila Rh1.	Stomoxys calcitrans stable fly - (species)	Stomoxys calcitrans stable fly - (species)	opsin - rhodopsin1 (RH1)	Stomoxys calcitrans stable fly - (species)	Published - Accepted by Curator