RetrogeneDB ID: | retro_fcat_820 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | B3:27207750..27209234(+) | ||
| Located in intron of: | ENSFCAG00000000153 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ARNT | ||
| Ensembl ID: | ENSFCAG00000003644 | ||
| Aliases: | None | ||
| Description: | aryl hydrocarbon receptor nuclear translocator [Source:HGNC Symbol;Acc:700] |
Retrocopy-Parental alignment summary:
>retro_fcat_820
ACAGGGCGTATCCTTCCAGACCTGAAGACTGGAACAATGAAAAAGGAAGGCCAACAGTCTTCCATGAAGATGTGTATGGG
CTCAAGGAGATAATTTATTTGCCGTAGAAGGTGCAGCAATAGCTCTGTGGACCCAGTCTCCATGAATAGACTGAGCTTTG
TGAGGAACAGATGCAGGAATGGACTTGGCTCTGTGAAGAATGGGGAACCTCATTTTGTGGTGGTCCACTGCACAGGCTAT
ATCAAGGCCTGGCCCCCAGCAGGTGTCTTCCTCCCAGATGATGATCCAGAGGCTGGCCAGGGGAGCAAATTTTGCCTAGT
GGCCATTGGCAGACTACAGGTAACCAGTTCTCCCAACTGTACAGACATGAGTAACATTTGTCGACCGACAGAGTTCATCT
CACGGCACAACATTGAGGGGATATTCACTTTTGTGGAACACCGCTGTGTGGCTACTGTTGGCTACCAACCACAGGAACTC
TTAGGAAAGAATATTGTAGAATTCTCTCATCCTGAAGACCAACAGCTTCTAAGAGACAGCTTGTAACAAGTGGTGAAGTT
AAAAGGCCAAGTGTTGTCTGTCATGTTCCGGTTCTGGTCTAAGAACCGGGAATGGCTCTGGATGAGAACCAGCTCCTTTA
CTTTCCAGAACACTTACTCAGATGAAATTGAGTACATCATCTGTACCACCAATGTGAAGAACTCCAGCCATCAACCAAGG
CCTACACTGTCCAACACAATCCAGAGACCACAGGTAGGTCCCATGGCTAATTTACCCTTAGAGATGGGCTCAGGGCAGTT
GGCATCCAGGAAGCATCAACAGCAAACAGAATTGGATGTGGTATCAGGAAACAATGGACTGGCTGGCTACAATCATTCCC
AGGTTTCTGTTCAGCCTGTAACAACCACAGGGCCAGAACACAGTAAGCCCCTTGAGAAGTCAGATGGTCTGTTTGCCAAG
GATAGAGATCCAAGATTTTCAGAAATCTACTCCAACATCAGTGCAGATCAGAGTAAAGGCATCTCCTCCAGCACTGTCCC
TGCCATCCAACAGCTATTCTCACAGGACAACACATTCCCTCCTACCCCCACCCCCGGCCGGCAGAGAATTTCAGAAATAG
TGATCTGGCCTCTCCTGTAACCATCGTCCAGCCATCAGCTTCTGCAGGGTAGATGTTGGCCCAGATTTCCCACCACTCCA
ACTCACCCCCAAGGAACCCCAACTTGGACCCTACCACCCGCCCAGACTTCTCTGCCCAGCAGGTGGCTACTCAGGCTACA
GCCAAGACTCGTTCTTCCCAGTTTGGTATGGGAAGCTTTCAGACTCCGTCCTCCTTCAGCCCCATGTCCCTCCCTGGTGC
TTCAACTGCGTCACCTGGTGCTGCTGCCTCCCCTAGTCTCACCAATCATGGATCCAACTTTGCTCCTGAGACTGGACAGA
CTACAGGACAATTCCAGACACAGACAGCAGAGGGTGTAAGTCTG
ORF - retro_fcat_820 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.6 % |
| Parental protein coverage: | 60.1 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SGRIL-DLKTGTVKKEGQQSSMRMCMGSRRSFICRMRCGNSSVDPVSMNRLSFVRNRCRNGLGSVKDGEP |
| .GRIL.DLKTGT.KKEGQQSSM.MCMGSRR.FICR.RC.NSSVDPVSMNRLSFVRNRCRNGLGSVK.GEP | |
| Retrocopy | TGRILPDLKTGTMKKEGQQSSMKMCMGSRR*FICRRRCSNSSVDPVSMNRLSFVRNRCRNGLGSVKNGEP |
| Parental | HFVVVHCTGYIKAWPPAGVSLPDDDPEAGQGSKFCLVAIGRLQVTSSPNCTDMSNVCQPTEFISRHNIEG |
| HFVVVHCTGYIKAWPPAGV.LPDDDPEAGQGSKFCLVAIGRLQVTSSPNCTDMSN.C.PTEFISRHNIEG | |
| Retrocopy | HFVVVHCTGYIKAWPPAGVFLPDDDPEAGQGSKFCLVAIGRLQVTSSPNCTDMSNICRPTEFISRHNIEG |
| Parental | IFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKNREWLWMRT |
| IFTFV.HRCVATVGYQPQELLGKNIVEF.HPEDQQLLRDS..QVVKLKGQVLSVMFRF.SKNREWLWMRT | |
| Retrocopy | IFTFVEHRCVATVGYQPQELLGKNIVEFSHPEDQQLLRDSL*QVVKLKGQVLSVMFRFWSKNREWLWMRT |
| Parental | SSFTFQNPYSDEIEYIICTNTNVKNSSQEPRPTLSNTIQRPQLGPTANLPLEMGSGQLASRQQQQQTELD |
| SSFTFQN.YSDEIEYIICT.TNVKNSS..PRPTLSNTIQRPQ.GP.ANLPLEMGSGQLASR..QQQTELD | |
| Retrocopy | SSFTFQNTYSDEIEYIICT-TNVKNSSHQPRPTLSNTIQRPQVGPMANLPLEMGSGQLASRKHQQQTELD |
| Parental | VVSGRDGLTGYNHSQVSVQPVTTTGPEHSKPLEKSDSLFAQDRDPRFSEIYSNISADQSKGISSSTVPAT |
| VVSG..GL.GYNHSQVSVQPVTTTGPEHSKPLEKSD.LFA.DRDPRFSEIYSNISADQSKGISSSTVPA. | |
| Retrocopy | VVSGNNGLAGYNHSQVSVQPVTTTGPEHSKPLEKSDGLFAKDRDPRFSEIYSNISADQSKGISSSTVPAI |
| Parental | QQLFSQ-GNTFP--PTPRPAENFRNSGLASPVTIVQPSASAGQMLAQISRHSNPP-QGAAPTWT-PSTRP |
| QQLFSQ.G...P..P.PRPAENFRNS.LASPVTIVQPSASAG.MLAQIS.HSN.P.QG..PTWT.P.TRP | |
| Retrocopy | QQLFSQ<GQHIPSYPHPRPAENFRNSDLASPVTIVQPSASAG*MLAQISHHSNSP>QGT-PTWT<PTTRP |
| Parental | GFSAQQVATQATAKTRSSQFGVGSFQTPSSFSPMSLPGASTASPGAAAYPSLTNRGSNFAPETGQTTGQF |
| .FSAQQVATQATAKTRSSQFG.GSFQTPSSFSPMSLPGASTASPGAAA.PSLTN.GSNFAPETGQTTGQF | |
| Retrocopy | DFSAQQVATQATAKTRSSQFGMGSFQTPSSFSPMSLPGASTASPGAAASPSLTNHGSNFAPETGQTTGQF |
| Parental | QTRTAEGVSV |
| QT.TAEGVS. | |
| Retrocopy | QTQTAEGVSL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 0 .11 RPM | 29 .96 RPM |
| SRP017611_kidney | 0 .00 RPM | 18 .24 RPM |
| SRP017611_liver | 0 .00 RPM | 18 .60 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_820 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_820 was not experimentally validated.
Retrocopy orthology:
Felis catus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Felis catus | ENSFCAG00000003644 | 1 retrocopy |
retro_fcat_820 ,
|