Gephebase

Gephebase Search Results

This Summary Table shows only the major fields for each entry. If you are interested in other fields (gene synonyms, GO terms, molecular details of the mutation, comments, etc.), please export the .csv file, which contains the complete data for each entry. Please click on a GepheID if you want to see all information regarding a particular entry.

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Your research retrieved 30 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
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
BMP2	Fertility (egg production) Bird head morphology (male comb)	Cis-regulatory, Unknown	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Johnsson M; Gustafson I; Rubin CJ ; et al. (2012) A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during d[...] 1 Additional References Johnsson M; Rubin CJ; Höglund A (2014) The role of pleiotropy and linkage in genes affecting a sexual ornament and bone allocation in the c[...]	GP00000151	BMP2 Q90751	Physiology Morphology	unknown; but intergenic QTL peak with decomposed effects on expression of BMP2 and HAO1	Gallus gallus chicken - (species)	Gallus gallus chicken - (species)	BMP2	Gallus gallus chicken - (species)	Published - Accepted by Curator
Catecholamines up	Bristle number Lifespan Locomotor activity Sleep	Coding, Unknown	Drosophila melanogaster fruit fly - (species)	Intraspecific	Linkage Mapping	Carbone MA; Jordan KW; Lyman RF ; et al. (2006) Phenotypic variation and natural selection at catsup, a pleiotropic quantitative trait gene in Droso[...] 1 Additional References Stein MB; Koverola C; Hanna C (1997) Hippocampal volume in women victimized by childhood sexual abuse.	GP00000172	Catsup Q9V3A4	Morphology Physiology Behavior Behavior	unknown; but most large-effect variants appear to be coding	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	Catecholamines up	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Chalk5	Grain chalkiness Amylose content Grain yield	Cis-regulatory, SNP	Oryza sativa rice - (species)	Intraspecific	Linkage Mapping	Li Y; Fan C; Xing Y ; et al. (2014) Chalk5 encodes a vacuolar H(+)-translocating pyrophosphatase influencing grain chalkiness in rice.	GP00001309	Chalk5 A2Y0L3	Morphology Physiology Physiology	Two candidate SNPs at positions -721 and - 485 in promoter region	Oryza sativa rice - (species)	Oryza sativa rice - (species)	Chalk5	Oryza sativa rice - (species)	Published - Accepted by Curator
Cryptochrome 2 (CRY2) EDI allele	Flowering time Fruit shape (fruit length) Flower morphology (ovule number per fruit) Fertility (percentage of unfertilized ovules)	Coding, SNP	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	El-Din El-Assal S; Alonso-Blanco C; Peeters AJ ; et al. (2001) A QTL for flowering time in Arabidopsis reveals a novel allele of CRY2. 3 Additional References Olsen KM; Halldorsdottir SS; Stinchcombe JR (2004) Linkage disequilibrium mapping of Arabidopsis CRY2 flowering time alleles. el-Assal SE; Alonso-Blanco C; Hanhart CJ (2004) Pleiotropic effects of the Arabidopsis cryptochrome 2 allelic variation underlie fruit trait-related[...] Botto JF; Alonso-Blanco C; Garzarón I (2003) The Cape Verde Islands allele of cryptochrome 2 enhances cotyledon unfolding in the absence of blue [...]	GP00000192	CRY2 Q96524	Physiology Morphology Morphology Physiology	V367M	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	Cryptochrome 2 (CRY2) EDI allele	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
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
EDN3	Coloration (coat) Coloration (eyes) Hearing (loss)	Unknown, Unknown	Lama glama llama - (species) D Vicugna pacos alpaca - (species) D	Domesticated	Candidate Gene	Fan R; Gu Z; Guang X ; et al. (2020) Genomic analysis of the domestication and post-Spanish conquest evolution of the llama and alpaca.	GP00002182	EDN3 P14138	Morphology Morphology Physiology	Introgression from alpacas to lamas and clear correlation wit phenotype but no information on the mutation(s)	Vicugna vicugna vicugna - (species)	Lama glama llama - (species) D Vicugna pacos alpaca - (species) D	EDN3	Lama glama llama - (species) Vicugna pacos alpaca - (species)	Published - Accepted by Curator
ERECTA	Plant architecture Leaf architecture Transpiration	Unknown, Unknown	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Masle J; Gilmore SR; Farquhar GD (2005) The ERECTA gene regulates plant transpiration efficiency in Arabidopsis. 2 Additional References El-Lithy ME; Reymond M; Stich B (2010) Relation among plant growth, carbohydrates and flowering time in the Arabidopsis Landsberg erecta x [...] Huang X; Paulo MJ; Boer M (2011) Analysis of natural allelic variation in Arabidopsis using a multiparent recombinant inbred line pop[...]	GP00000280	ERECTA Q42371	Morphology Morphology Physiology	unknown	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	ERECTA	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
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
Ghd7	Flowering time Inflorescence morphology	Unknown, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Xue W; Xing Y; Weng X ; et al. (2008) Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice.	GP00000393	GHD7 E5RQA1	Physiology Morphology	unknown	Oryza sativa rice - (species)	Oryza sativa rice - (species)	Ghd7	Oryza sativa rice - (species)	Published - Accepted by Curator
GL7	Grain size Grain quality	Gene Amplification, Indel	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Wang Y; Xiong G; Hu J ; et al. (2015) Copy number variation at the GL7 locus contributes to grain size diversity in rice.	GP00001541	LNG1 Q9LF24	Morphology Physiology	tandem duplication of a 17.1 kb segment containing GL7. Both copies encode exactly the same polypeptide and exhibit similar transcript levels leading to upregulation	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GL7	Oryza sativa rice - (species)	Published - Accepted by Curator
GW7	Grain shape Grain quality	Cis-regulatory, Unknown	Oryza sativa rice - (species)	Domesticated	Linkage Mapping	Wang S; Li S; Liu Q ; et al. (2015) The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and [...]	GP00001540	TON1A Q9FQ25	Morphology Physiology	18 SNPs and 9 indels observed in the promoter region and exon 1 and in particular an 11-bp deletion and 18-bp insertion near GTAC motifs which are normally binded by OsSPL16 repressor (reduced binding increasing transcription)	Oryza sativa rice - (species)	Oryza sativa rice - (species)	GW7	Oryza sativa rice - (species)	Published - Accepted by Curator
HAO1	Fertility (egg production) Bird head morphology (male comb)	Cis-regulatory, Unknown	Gallus gallus chicken - (species)	Domesticated	Linkage Mapping	Johnsson M; Gustafson I; Rubin CJ ; et al. (2012) A sexual ornament in chickens is affected by pleiotropic alleles at HAO1 and BMP2, selected during d[...] 1 Additional References Johnsson M; Rubin CJ; Höglund A (2014) The role of pleiotropy and linkage in genes affecting a sexual ornament and bone allocation in the c[...]	GP00000437	HAO1 E1BRR7	Physiology Morphology	unknown; but intergenic QTL peak with decomposed effects on expression of BMP2 and HAO1	Gallus gallus chicken - (species)	Gallus gallus chicken - (species)	HAO1	Gallus gallus chicken - (species)	Published - Accepted by Curator
HUA2	Flowering time Shoot morphology	Coding, SNP N	Arabidopsis thaliana thale cress - (species)	Intraspecific	Linkage Mapping	Wang Q; Sajja U; Rosloski S ; et al. (2007) HUA2 caused natural variation in shoot morphology of A. thaliana.	GP00000491	HUA2 Q9XER9	Physiology Morphology	K525E N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species)	HUA2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
HUA2	Flowering time Coloration (temperature-dependent)	Coding, Unknown N	Arabidopsis thaliana thale cress - (species) D	Intraspecific	Linkage Mapping	Ilk N; Ding J; Ihnatowicz A ; et al. (2015) Natural variation for anthocyanin accumulation under high-light and low-temperature stress is attrib[...] 1 Additional References Doyle MR; Bizzell CM; Keller MR (2005) HUA2 is required for the expression of floral repressors in Arabidopsis thaliana.	GP00001230	HUA2 Q9XER9	Physiology Morphology	Premature stop codon resulting in truncation of 290 C-terminal amino-acids (hua-2-5 Ler allele) N	Arabidopsis thaliana thale cress - (species)	Arabidopsis thaliana thale cress - (species) D	HUA2	Arabidopsis thaliana thale cress - (species)	Published - Accepted by Curator
InR	Fertility Developmental time Body size Stress response Lifespan	Coding, Indel	Drosophila melanogaster fruit fly - (species)	Intraspecific	Candidate Gene	Paaby AB; Bergland AO; Behrman EL ; et al. (2014) A highly pleiotropic amino acid polymorphism in the Drosophila insulin receptor contributes to life-[...] 1 Additional References Paaby AB; Blacket MJ; Hoffmann AA (2010) Identification of a candidate adaptive polymorphism for Drosophila life history by parallel independ[...]	GP00002663	InR P09208	Morphology Morphology; Physiology Physiology Physiology Physiology	Deletion of 9 nucleotides in the first exon. The two alleles differ by presence/absence of the three amino acids QHH.	Drosophila melanogaster fruit fly - (species)	Drosophila melanogaster fruit fly - (species)	InR	Drosophila melanogaster fruit fly - (species)	Published - Accepted by Curator
Insulin-like growth factor 2 (IGF2)	Muscular mass Fat deposition Heart size	Cis-regulatory, SNP	Sus scrofa domesticus domestic pig - (subspecies)	Domesticated	Linkage Mapping	Van Laere AS; Nguyen M; Braunschweig M ; et al. (2003) A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig.	GP00000502	Igf2 P09535	Morphology Physiology Morphology	1bp change	Sus scrofa pig - (species)	Sus scrofa domesticus domestic pig - (subspecies)	Insulin-like growth factor 2 (IGF2)	Sus scrofa domesticus domestic pig - (subspecies)	Published - Accepted by Curator
MNR2	Bird head comb Fertility (sperm motility)	Gene Amplification, Inversion	Gallus gallus chicken - (species) D	Domesticated	Linkage Mapping	Imsland F; Feng C; Boije H ; et al. (2012) The Rose-comb mutation in chickens constitutes a structural rearrangement causing both altered comb [...]	GP00000675	MNR2 Q9YHY8	Morphology Physiology	7.4Mb inversion (and secondary structural re-arrangement in some individuals)	Gallus gallus chicken - (species)	Gallus gallus chicken - (species) D	MNR2	Gallus gallus chicken - (species)	Published - Accepted by Curator
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
MRC2	Muscular mass Tail shape (crooked ; defect)	Coding, SNP	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[...]	GP00002265	MRC2 Q9UBG0	Physiology Morphology	c.1906T>G p.C636G	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	MRC2	Bos taurus cattle - (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
Os07g0603400	Grain size Grain quality	2 Mutations: Coding SNP N	Oryza sativa rice - (species) D	Domesticated	Linkage Mapping	Wang Y; Xiong G; Hu J ; et al. (2015) Copy number variation at the GL7 locus contributes to grain size diversity in rice.	GP00001542	Os07g0603400 A3BLY4	Morphology Physiology	2 mutations	Oryza sativa rice - (species)	Oryza sativa rice - (species) D	Os07g0603400	Oryza sativa rice - (species)	Published - Accepted by Curator
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
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
Prolactin receptor	Hair (slick ; short) Thermoregulation (tolerance to warm climate)	Coding, SNP N	Bos taurus cattle - (species) D	Domesticated		Porto-Neto LR; Bickhart DM; Landaeta-Hernandez AJ ; et al. (2018) Convergent Evolution of Slick Coat in Cattle through Truncation Mutations in the Prolactin Receptor.	GP00002283	PRLR P16471	Morphology Physiology	g.39136571C>A p.Ser465* N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Prolactin receptor	Bos taurus cattle - (species)	Published - Accepted by Curator
Prolactin receptor	Hair (slick ; short) Thermoregulation (tolerance to warm climate)	Coding, SNP N	Bos taurus cattle - (species) D	Domesticated		Porto-Neto LR; Bickhart DM; Landaeta-Hernandez AJ ; et al. (2018) Convergent Evolution of Slick Coat in Cattle through Truncation Mutations in the Prolactin Receptor.	GP00002284	PRLR P16471	Morphology Physiology	g.39136666C>T p.Arg497* N	Bos taurus cattle - (species)	Bos taurus cattle - (species) D	Prolactin receptor	Bos taurus cattle - (species)	Published - Accepted by Curator
RXFP2	Horns absence Somatic sex change	Gene Amplification, Insertion	Ovis aries sheep - (species)	Domesticated	Linkage Mapping	Johnston SE; Gratten J; Berenos C ; et al. (2013) Life history trade-offs at a single locus maintain sexually selected genetic variation. 1 Additional References Wiedemar N; Drögemüller C (2015) A 1.8-kb insertion in the 3'-UTR of RXFP2 is associated with polledness in sheep.	GP00001019	RXFP2 Q8WXD0	Morphology Physiology	1833-bp genomic insertion located in the 3'-UTR region of RXFP2	Ovis aries sheep - (species)	Ovis aries sheep - (species)	RXFP2	Ovis aries sheep - (species)	Published - Accepted by Curator
Starch branching enzyme (SBEI) = rugosus (R)	Starch structure Seed aspect	Coding, Insertion N	Pisum sativum pea - (species) D	Domesticated	Linkage Mapping	Bhattacharyya MK; Smith AM; Ellis TH ; et al. (1990) The wrinkled-seed character of pea described by Mendel is caused by a transposon-like insertion in a[...]	GP00001078	SBEI Q41058	Physiology Morphology	800 bp TE insertion; probably disrupts the last 61 amino acids of the SBEI protein N	Pisum sativum pea - (species)	Pisum sativum pea - (species) D	Starch branching enzyme (SBEI) = rugosus (R)	Pisum sativum pea - (species)	Published - Accepted by Curator
Style2.1	Flower morphology (style length) Autogamy	Cis-regulatory, Unknown	Solanum lycopersicum tomato - (species) D	Domesticated	Linkage Mapping	Chen KY; Cong B; Wing R ; et al. (2007) Changes in regulation of a transcription factor lead to autogamy in cultivated tomatoes.	GP00001081	100301942 B6CG44	Morphology Physiology	Not identified	Solanum pennellii (species)	Solanum lycopersicum tomato - (species) D	Style2.1	Solanum lycopersicum tomato - (species)	Published - Accepted by Curator