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Link to this search: https://omia.org/results/?gb_species_id=9031&result_type=variant&search_type=advanced

72 variant records found

[show instead phene records]

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WARNING! Inclusion of a variant in this table does not automatically mean that it should be used for DNA testing. Anyone contemplating the use of any of these variants for DNA testing should examine critically the relevant evidence (especially in breeds other than the breed in which the variant was first described). If it is decided to proceed, the location and orientation of the variant sequence should be checked very carefully.

Since October 2021, OMIA includes a semiautomated lift-over pipeline to facilitate updates of genomic positions to a recent reference genome position. These changes to genomic positions are not always reflected in the ‘acknowledgements’ or ‘verbal description’ fields in this table.

OMIA Variant ID OMIA Phene-Species ID(s) Species Name Breed(s) Variant Phenotype Gene Allele Variant Type Variant Effect Source of Genetic Variant Pathogenicity Classification* Reference Sequence Chr. g. or m. c. or n. p. Verbal Description EVA ID Year Published PubMed ID(s) Acknowledgements
2 OMIA:000042-9031 chicken Wisconsin hypoalpha mutant (WHAM), United States of America (Chicken) Analphalipoproteinaemia ABCA1 missense Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.54877918C>T c.265G>A p.(E89K) 2002 12364545 Variant coordinates obtained from or confirmed by EBI's Variant Effect Predictor (VEP) tool
323 OMIA:000702-9031 chicken Nanomelia ACAN nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a 10 g.13502829C>A c.4537G>T p.(E1513*) 1994 7827752 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
325 OMIA:001622-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup C BTN1A1 nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a 28 g.903289G>T c.165C>A p.(C55*) rs735807319 2005 16051833 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
538 OMIA:001299-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup A CD320 deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated 28 c.502_511delCGCTCACCCC 2015 25873518
539 OMIA:001299-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup A CD320 deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated 28 c.502_516delCGCTCACCCCGCCCC 2015 25873518
395 OMIA:001299-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup A CD320 splicing Naturally occurring variant Not currently ISAG evaluated 28 c.506-515del10 2012 22171251
396 OMIA:001299-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup A CD320 splicing Naturally occurring variant Not currently ISAG evaluated 28 c.507-511del5 2012 22171251
603 OMIA:001299-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup A CD320 tva^r2 insertion, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 28 g.985659_985660insCTCG c.48_49insCTCG p.(P18Afs) NM_001044645.1; NP_001038110.1 2004 15564460 Genomic position in GRCg6a provided by Joshua Khamis.
12 OMIA:001299-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup A CD320 tva^r missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 28 g.985980C>G c.185C>G p.(C62W) NM_001044645.1; NP_001038110.1; published as c.120C>G and p.(C40W); coordinates in the table have been updated to a recent reference genome and / or transcript 2004 15564460 Genomic position in GRCg6a provided by Joshua Khamis.
3 OMIA:000102-9031 chicken Sex-linked extreme dilution CDKN2A B0 complex rearrangement Naturally occurring variant Not currently ISAG evaluated Z The B0 allele is characterised by two non-coding variants: "The first, SNP1, is within the CDKN2A (ARF) promoter region, 265 bp upstream of the transcription start site (according to GenBank AY138245), and the second, SNP2, is located at nucleotide position 385 bp in CDKN2A intron 1" 2010 20374521
5 OMIA:000102-9031 chicken Sex-linked dilution CDKN2A B2 missense Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.78856557G>A c.28C>T p.(R10C) 2010 20374521 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
4 OMIA:000102-9031 chicken Sex-linked barring CDKN2A B1 missense Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.78856559A>T c.26T>A p.(V9D) 2010 20374521 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
1545 OMIA:002667-9031 chicken Feather colour, Inhibitor of gold COMTD1 IG insertion, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 6 g.15675521_15675522insCT c.747_748insCT p.(Q250fs) XM_015288295.1; XP_015143781.1 2023 37068079
720 OMIA:000452-9031 chicken Campine (Chicken) Sebright Bantams, United Kingdom of Great Britain and Northern Ireland (Chicken) Henny feathering CYP19A1 insertion, gross (>20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 10 g.9683879_9683880insN[7524] The insertion is 7524bp and "contains an intact endogenous retrovirus that was not found in chickens representing 31 different breeds not showing henny feathering or in samples of the ancestral red junglefowl. The sequence shows over 99% sequence identity to the avian leukosis virus ev-1 and ev-21 strains, suggesting a recent integration. The ERV 3’LTR, containing a powerful transcriptional enhancer and core promoter with TATA box together with binding sites for EFIII and Ig/EBP inside the CYP19A1 5′ untranslated region" (Li et al., 2019) 1991 1939054 Genomic location and size of the insertion provided by Li et al. (2019)
722 OMIA:001671-9031 chicken Bohuslän - Dals svarthöna, Sweden (Chicken) H'mong, Viet Nam (Chicken) Kedu, Indonesia (Chicken) Silkie (Chicken) Silky/Silkie pigmentation (Fibromelanosis) EDN3 FM complex rearrangement Naturally occurring variant Not currently ISAG evaluated 20 the FM mutation actually involves "the duplication of two genomic regions, each larger than 100 kb and separated by 417 kb on wild-type [GGA20] chromosomes" 2011 22216010
16 OMIA:001904-9031 chicken Feather colour, recessive white EDNRB2 mo^w missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 4 g.11164302G>T c.731G>T p.(C244F) NM_204120.1; NP_989451.1; published as c.1008G>T and p.(C244F); coordinates in the table have been updated to a recent reference genome and / or transcript 2014 24466053 Genomic position in GRCg6a provided by Joshua Khamis.
17 OMIA:001904-9031 chicken Feather colour, mottled EDNRB2 mo missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 4 g.11166001G>A c.999G>A p.(R332H) NM_204120.1; NP_989451.1; published as c.1272G>A and p.(R332H); coordinates in the table have been updated to a recent reference genome and / or transcript 2014 24466053 Genomic position in GRCg6a provided by Joshua Khamis.
759 OMIA:000296-9031 chicken Duplex comb EOMES duplication Naturally occurring variant Not currently ISAG evaluated 2 "a 20 Kb tandem duplication containing several conserved putative regulatory elements located 200 Kb upstream of the eomesodermin gene (EOMES)" 2015 25789773
1169 OMIA:002543-9031 chicken Cleft primary palate ESRP2 deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.3284041del ss5200091912 2020 32162363
327 OMIA:000889-9031 chicken Israeli experimental line, Israel (Chicken) Storrs Connecticut scaleless low line, United States of America (Chicken) UC Davis line, United States of America (Chicken) Scaleless FGF20 nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a 4 g.63270401A>T c.535A>T p.(R179*) 2012 22712610 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
860 OMIA:001360-9031 chicken Beijing You, China (Chicken) Commercial strain- layer- ISA Brown (Chicken) Commercial strain- layer- Lohmann Brown (Chicken) Marans (Chicken) Rhode Island Red (Chicken) TETRA strain, United States of America (Chicken) Transylvanian Naked Neck (Chicken) Trimethylaminuria (fishy taint) FMO3 missense Naturally occurring variant Not currently ISAG evaluated 8 c.1034A>T p.(T329S) 2005 15916878
744 OMIA:001245-9031 chicken Rhode Island Red (Chicken) Retinal degeneration I GC1 complex rearrangement Naturally occurring variant Not currently ISAG evaluated 26 This allele is characterised by an 81bp insertion adjacent to a 642bp deletion 1998 9448321
721 OMIA:000701-9031 chicken Naked neck GDF7 insertion, gross (>20) Naturally occurring variant Not currently ISAG evaluated 3 a large insertion approximately 260kb downstream from the BMP12 gene (now known as GFD7), increasing the expression of this gene in embryonic skin 2011 21423653
660 OMIA:000309-9031 chicken Connecticut (CT) strain, United States of America (Chicken) S2 line, China (Chicken) Dwarfism, sex-linked GHR deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated Z deletion of 1773 bp in the 3' end of the coding region of the growth hormone receptor gene 1994 7964293
1362 OMIA:001152-9031 chicken Feather colour, melanotic GJA5 delins, gross (>20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 1 g.95256761_95256801delinsAAACTACTGCTTATTAAACTACTACTACTATTTAAGAT cis-acting regulatory mutation 2021 34607956
515 OMIA:001368-9031 chicken Retinopathy globe enlarged GNB3 deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated 1 c.D153del 2006 17065478
751 OMIA:000668-9031 chicken Huiyang Bearded, China (Chicken) Muffs and beard HOXB8 complex rearrangement Naturally occurring variant Not currently ISAG evaluated 27 "The Mb allele differs from the wild-type mb allele by three duplications, one in tandem and two that are translocated to that of the tandem repeat around 1.70 Mb on GGA27 2016 27253709
1296 OMIA:000240-9031 chicken Crested (Chicken) Silkie (Chicken) Crest HOXC10 duplication Naturally occurring variant Not currently ISAG evaluated GRCg6a 33 g.7587588_7587784dup "a 197 bp duplication of an evolutionarily conserved sequence located in the intron of HOXC10 on chromosome 33" (Li et al., 2021) 2021 33704432
687 OMIA:000006-9031 chicken Chinese Xingyi bantam, China (Chicken) Achondroplasia, creeper IHH deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated Gallus_gallus-4.0 7 g.21798705_21810600del "a 11,896bp large deletion region (chr7: 21,798,705-21,810,600) covering the entire Indian hedgehog (IHH) gene" 2016 27439785
604 OMIA:000979-9031 chicken Talpid-3 KIAA0586 insertion, small (<=20) Naturally occurring variant Not currently ISAG evaluated 5 insT 2006 16702409
662 OMIA:000394-9031 chicken Frizzle KRT6A deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 33 g.5251413_5251496del p.(V311_K333del) NM_001001313.2; NP_001001313.2; published as a 84bp deletion that covers positions −24 of exon 5 to +59 of intron 5 of KRT6A (called KRT75 in an earlier genome assembly); the deletion activates a cryptic splice site resulting in a 69 bp in-frame deletion in mRNA after splicing and a deletion of 23-amino acids (position 311–333) 2012 22829773
1398 OMIA:002486-9031 chicken Kirin (Chicken) Xiushui Yellow (Chicken) Frizzle KRT75L4 deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 33 g.5285437_5285451del g.5285437-5285451delGATGCCGGCAGGACG 2018 30572816
663 OMIA:001612-9031 chicken Silkie (Chicken) Oligozeugodactyly LMBR1 deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated 2 "a large deletion in LMBR1-intron 5, eliminating most of the limb-specific enhancer conserved sequence." 2011 21509895
393 OMIA:000344-9031 chicken Fayoumi (Chicken) Epilepsy LOC430486 splicing Naturally occurring variant Not currently ISAG evaluated 25 c581-4CC>TG 2011 22046416
817 OMIA:000374-9031 chicken Feather colour, extended black MC1R regulatory Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.18840609C>T c.-37C>T 5 prime UTR variant rs733919322 2017 28699279 ENSGALT00000096195.1:c.-37C>T
818 OMIA:000374-9031 chicken Feather colour, extended black MC1R E missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.18840857T>C c.212T>C p.(M71T) ENSGALT00000096195.1:c.212T>C ENSGALP00000071620.1:p.Met71Thr rs312264213 2017 28699279
6 OMIA:000374-9031 chicken Feather colour, extended black MC1R E missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.18840919G>A c.274G>A p.(E92K) ENSGALT00000096195.1:c.274G>A ENSGALP00000071620.1:p.Glu92Lys rs314881228 2003 12873211
1306 OMIA:002108-9031 chicken Fayoumi (Chicken) Barring, autosomal MC1R E*R(Fay), Pg missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.18841043T>A c.398T>A p.(L133Q) rs737523889 2021 33793042
1142 OMIA:000374-9031 chicken Mie-Jidori, Japan (Chicken) Feather colour, wheaten-like MC1R e^m missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.18841289A>C c.644A>C p.(H215P) ENSGALT00000096195.1:c.644A>C ENSGALP00000071620.1:p.His215Pro rs735789743 2020 31977074
7 OMIA:000374-9031 chicken Feather colour, buttercup MC1R missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 11 g.18841289A>C c.644A>C p.(H215P) ENSGALT00000096195.1:c.644A>C ENSGALP00000071620.1:p.His215Pro rs735789743 2003 12873211
807 OMIA:001445-9031 chicken Five gray MLPH missense Naturally occurring variant Not currently ISAG evaluated 7 g.4727070A>G c.1909A>G 2016 27173258
8 OMIA:001445-9031 chicken Feather colour, lavender MLPH missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 7 g.4833305G>A c.103C>T p.(R35W) 2008 18197963 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
1433 OMIA:000884-9031 chicken Rose comb MNR2 R2 complex rearrangement Naturally occurring variant Not currently ISAG evaluated galGal3 7 g.16499781_16499782ins[23881384_23790414inv;16499583–16499781] predicted to be the result of a recombination event between the wild-type allele and the R1 allele: "R2 does not carry the entire inversion but instead has two duplicated segments, one 91 kb fragment (23,790,414–23,881,384 bp) that represents a remaining fragment of the inverted region together with a small duplicated fragment of 198 bp (16,499,583–16,499,781 bp)" 2012 22761584
745 OMIA:000884-9031 chicken Rose comb MNR2 R1 inversion Naturally occurring variant Not currently ISAG evaluated galGal3 7 g.16499782_23881391delins23881384_16499781 published as a 7.38 Mb inversion 2012 22761584
326 OMIA:001366-9031 chicken Retinal dysplasia and degeneration MPDZ nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.31023848G>A c.1372C>T p.(R458*) 2011 21862650 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
14 OMIA:001534-9031 chicken Resistance to myxovirus MX1 missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 1 g.110260061G>A c.1892G>A p.(S631N) rs313590198 2002 11932243 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
664 OMIA:001101-9031 chicken Polymorphic Nucleolar [PNU] strain, United States of America (Chicken) Ribosomal RNA deficiency NOR deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated "Embryos exhibiting a nucleolar phenotype of one large and one very small nucleolus (Pp) are heterozygous for a reduced rDNA cluster (+/p1) and were shown in the present study to contain about 66% of the complement of rRNA genes in normal individuals (+/+) that show two large equal-sized nucleoli (PP)" 1994 8014461
966 OMIA:000913-9031 chicken Silkie (Chicken) Silky/Silkie feathering PDSS2 PDSS2(-103C-G) regulatory Naturally occurring variant Not currently ISAG evaluated GRCg6a 3 g.67850419C>G c.-103C>G Feng et al. (2014): "a C to G transversion at 70,486,623 bp (ss666793747)" "The ss666793747 mutation is 103 bp upstream of the initiator codon ATG of PDSS2". The reported location was with respect to the galGal2 assembly. In the intervening years, ss666793747 has become rs316090093, from which the present location is taken. rs316090093 2014 25166907
1211 OMIA:002270-9031 chicken Feathered shanks PITX1 deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 13 g.16089993_16107660del a 17.7kb deletion upstream of PITX1. 2020 32344431 32344429
600 OMIA:000373-9031 chicken White Leghorn (Chicken) Feather colour, dominant white PMEL I insertion, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 33 g.7095476_7095477insCTGGGCACC c.2021_2022insCTGGGCACC p.(L674_L675insWAP) ENSGALT00000077972.2; ENSGALP00000051268.2; published as a 9-bp (3aa) insertion (WAP) in exon 10; AY636127 2004 15579702
601 OMIA:000373-9031 chicken Feather colour, Dun PMEL D delins, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 33 g.7095492_7095507delinsC c.2037_2052delinsC p.(L680_A684del) ENSGALT00000077972.2; ENSGALP00000051268.2; published as "a deletion of five amino acids [LGTAA] in the transmembrane region"; AY636129 2004 15579702
602 OMIA:000373-9031 chicken White Leghorn (Chicken) Feather colour, Smoky PMEL S deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 33 g.[7093782_7093793del;7095476_7095477insCTGGGCACC] c.[839_850del;2021_2022insCTGGGCACC] p.[(P280_T283del;L674_L675insWAP)] ENSGALT00000077972.2; ENSGALP00000051268.2; published as a 9-bp insertion in exon 10 shared with Dominant white and a deletion of 12 nucleotides in exon 6, eliminating four amino acids (PTVT); AY636128 2004 15579702
719 OMIA:000380-9031 chicken Feathering, Z-linked PRLR duplication Naturally occurring variant Not currently ISAG evaluated Z The tandem duplication of this region results in the partial duplication of two genes; the prolactin receptor and the gene encoding sperm flagellar protein 2. 2008 18713476
1123 OMIA:001547-9031 chicken Wingless-2 RAF1 nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a 12 g.5374854G>A c.175C>T p.(R59*) NC_006099.5:g.5374854G>A ENSGALT00000033956.3:c.175C>T ENSGALP00000033314.3:p.Arg59Ter rs314452077 2019 31075853
913 OMIA:000876-9031 chicken Riboflavinuria RBP splicing Naturally occurring variant Not currently ISAG evaluated 8 A "deletion in the rd ribBP cDNA correspond[ing] precisely to an exon. The splice site following this exon contains a G-->A mutation at position 1 of the downstream 5'-splice donor sequence. 1993 8226844
836 OMIA:000810-9031 chicken Polydactyly SHH regulatory Naturally occurring variant Not currently ISAG evaluated GRCg6a 2 g.8553470G>T published as "single SNP in a highly conserved cis-regulatory region of Sonic Hedgehog was significantly associated with polydactyly" rs80659072 2010 20064842
514 OMIA:000370-9031 chicken Sex-linked imperfect albinism SLC45A2 S*AL deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated Z c.106delT 2007 17151254
9 OMIA:000370-9031 chicken Feather colour, silver SLC45A2 S*S missense Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.10336596G>T c.1039C>A p.(L347M) rs314509501 2007 17151254 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
10 OMIA:000370-9031 chicken White Leghorn (Chicken) Feather colour, silver SLC45A2 S*S missense Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.10340909T>C c.830A>G p.(Y277C) rs315357427 2007 17151254 Variant coordinates obtained from or confirmed by EBI's Variant Effect Predictor (VEP) tool
864 OMIA:000142-9031 chicken Dong, an chicken, China (Chicken) Lushi, China (Chicken) Blue eggshell SLCO1B3 insertion, gross (>20) Naturally occurring variant Not currently ISAG evaluated 1 "a ~4.2 kb [retroviral] EAV-HP insertion in the 5' flanking region of SLCO1B3" 2013 23359636
717 OMIA:000142-9031 chicken Araucana (Chicken) Blue eggshell SLCO1B3 insertion, gross (>20) Naturally occurring variant Not currently ISAG evaluated 1 A different location for the same insertion: "a ~4.2 kb [retroviral] EAV-HP insertion in the 5' flanking region of SLCO1B3" but 23bp upstream of where the insertion occurs in Chinese breeds Dongxiang and Lushi 2013 23359636
661 OMIA:001569-9031 chicken Dark brown/yellow plumage SOX10 deletion, gross (>20) Naturally occurring variant Not currently ISAG evaluated GRCg6a 1 g.51035106_51042744delinsGGTGCGGTGA Gunnarsson et al. (2011): "an 8.3-kb deletion upstream of SOX10" Zhu et al. (2022): "the genome region from 51,035,106 bp to 51,042,744 bp is missing in LY [yellow] chickens, with this region showing a novel 10 bp insertion (GGTGCGGTGA)" 2011 21210960
758 OMIA:000782-9031 chicken Japanese Game Bantam (Chicken) Pea comb SOX5 repeat variation Naturally occurring variant Not currently ISAG evaluated 1 "Pea-comb is caused by a massive amplification of a duplicated sequence located near evolutionary conserved non-coding sequences in intron 1 of the gene encoding the SOX5 transcription factor." The pea-comb mutant phenotype results from large-scale amplification of this duplication: pea comb alleles typically have 20-40 copies of the duplicated sequence, which must be sufficient to interfere with transcription. 2009 19521496
1210 OMIA:000839-9031 chicken Feathered shanks TBX5 regulatory Naturally occurring variant Not currently ISAG evaluated GRCg6a 15 g.12573054T>C This SNP is 25kb upstream of the gene TBX5 (Bortoluzzi et al., 2020; Li et al. 2020) 2020 32344431 32344429
1047 OMIA:000303-9031 chicken White Leghorn (Chicken) Dwarfism, autosomal TMEM263 nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a 1 g.53638233C>T c.433G>A p.(W59*) Wu et al. (2018): "NM_001006244.1:c.433G > A . . . NP_001006244.1:p.(Trp59∗)" 2018 29930570
13 OMIA:001302-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup B TNFRSF10B missense Naturally occurring variant Not currently ISAG evaluated 22 c.G>C p.(C125S) 2008 18094190
324 OMIA:001302-9031 chicken Resistance to avian sarcoma and leukosis viruses, subgroup B TNFRSF10B nonsense (stop-gain) Naturally occurring variant Not currently ISAG evaluated GRCg6a 22 g.1418711C>T c.172C>T p.(Q58*) rs736008824 2002 12097608 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool
718 OMIA:000369-9031 chicken Feather colour, recessive white TYR C*C insertion, gross (>20) Naturally occurring variant Not currently ISAG evaluated 1 a retroviral insertion in the tyrosinase gene 2006 16457736
513 OMIA:000369-9031 chicken Feather colour, albinism TYR C*A deletion, small (<=20) Naturally occurring variant Not currently ISAG evaluated 1 c.817_822del6 p.(D237_W238del) 2000 10685888
1057 OMIA:001259-9031 chicken Orpington (Chicken) Wyandotte (Chicken) Chocolate feathered TYRP1 missense Naturally occurring variant Not currently ISAG evaluated GRCg6a Z g.30830300G>T c.640C>A p.(H214N) 2019 30457703
15 OMIA:000865-9031 chicken Restricted ovulator VLDLR missense Naturally occurring variant Not currently ISAG evaluated Z c.G>C p.(C682S) 1995 7568242
11 OMIA:000679-9031 chicken New Hampshire (Chicken) Muscular dystrophy WWP1 missense Naturally occurring variant Not currently ISAG evaluated GRCg6a 2 g.123014353G>A c.1322G>A p.(R441Q) 2008 18501710 Variant coordinates obtained from or confirmed by EBI's Some Effect Predictor (VEP) tool

* Variant pathogenicity for single gene diseases as evaluated by an expert panel of the International Society of Animal Genetics (ISAG) Animal Genetic Testing Standardization Standing Committee

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Overall Statistics
Total number of variants 72
Variants with genomic location 44 (61.1% )
Variants in a variant database, i.e. with rs ID 15 (20.8%)
Variant Type Count Percent
complex rearrangement 5 6.9%
deletion, gross (>20) 7 9.7%
deletion, small (<=20) 8 11.1%
delins, gross (>20) 1 1.4%
delins, small (<=20) 1 1.4%
duplication 3 4.2%
insertion, gross (>20) 5 6.9%
insertion, small (<=20) 4 5.6%
inversion 1 1.4%
missense 21 29.2%
nonsense (stop-gain) 7 9.7%
regulatory 4 5.6%
repeat variation 1 1.4%
splicing 4 5.6%
Variant Effect Count Percent
unknown 72 100.0%
Year First Reported Count Percent
1991 1 1.4%
1992 0 0.0%
1993 1 1.4%
1994 3 4.2%
1995 1 1.4%
1996 0 0.0%
1997 0 0.0%
1998 1 1.4%
1999 0 0.0%
2000 1 1.4%
2001 0 0.0%
2002 3 4.2%
2003 2 2.8%
2004 5 6.9%
2005 2 2.8%
2006 3 4.2%
2007 3 4.2%
2008 4 5.6%
2009 1 1.4%
2010 4 5.6%
2011 6 8.3%
2012 6 8.3%
2013 2 2.8%
2014 3 4.2%
2015 3 4.2%
2016 3 4.2%
2017 2 2.8%
2018 2 2.8%
2019 2 2.8%
2020 4 5.6%
2021 3 4.2%
2022 0 0.0%
2023 1 1.4%