RetrogeneDB ID: | retro_chof_997 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_18202:2918..4215(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FAM217A | ||
| Ensembl ID: | ENSCHOG00000001891 | ||
| Aliases: | None | ||
| Description: | family with sequence similarity 217, member A [Source:HGNC Symbol;Acc:21362] |
Retrocopy-Parental alignment summary:
>retro_chof_997
AACCATTTGGAAATTCCACTAGAGCAACTGATAGAACTTAATTTGTCAGAGCTGGCTTACAAAAGAACCCAGAATAATAA
ACAAGGGATATTTCAGTTATGGACTTATCCTTTTAATGAAGAAAGCACCATGGAGAACAGAGATTTAAAAAAATCTTCAG
TGGAAACTGACTTTAATGTAACCAATAAGCCCATAAAGCTCTTCACTCAGAACCGCTTACTAACAGACACTTCAGTTGAG
AAGCAAGTCTGTACCTACCCTGAACTACAACAACAGATGCCATTAGGTCTCTGCTGGCCCTATGCTGATGGAGACTTTTT
TAAAGGCAGAAATGATCCTCATATTAATTCAGTTTCAGCTATAGAAAACAACAGTGATGAAACTTTTTCTGCTCCAATTG
GAATTTGAAATATGGAAACAGCAGTGTGGAAGAAAATTTAACAGATGAAAGTGATTTTTCAGAAAATGAAAAAACAATTG
ATATTTTACTCAGCTATTTTAAAAAGATGGACTGAACTTAAAGCCAGAAACAATAGAAAACTTTGAAGAATCTTTCACAG
AGGAGCCAAGTGAAGTATTTCCATATCGTGATTTTCTCCCACCACCCTTTAATACTCTGGACTTGCACAAATTAGCCCTC
TCAAAATCTGAAAATTGGAAAGCAACAGTGGAGCCCCCAGAAAGCTCTATTGGACACTTGGTAACTCGTTTACTGGAAAT
GGAAAGAATACAACATGCGACTATACAAAAAGAGAGGCCAAGACTACAAACCAGCTTCTTCTCTCCAGCAGTTAATGAAC
GACTCTTATCCTTCAAAGCTATACCCAAAGTGAAGTCAAAACTTTCTCATTCTTTCAGTCTTCAGACATCTTATGTAGCT
AAAAGTCAAGAAAAAAGAAAAAGCAATTCTGGTTCTTGCAAGATTGAACAAAATGCTTCAAAATGGAATTTGAACCATGC
TGGAAAGTACAAATAGAATACTAGACCACTATCTCTAAAAAGTTCATCCATCACAAAACAATTTCTTGCACCTTATAAAA
ACTTTAAAAATCCCAAGAGCTCCATTTTAAATCCATGCCAAGAACTCTCAACCAAGCCTATTGCTGCCCAAAAAACACAG
TTGGTAAAAATGATCTCAGCATGATGTCTGCCACCAAGGTTTCCAATACCAATTTCACCTGTACCTTTGTCTTTTCCTGA
AAATCAGAGGGAAGAAATTAAGCCACCAAGGACCAAAAAGAAACTTTACAGAAAAAATGTGATATTGAACAGACCATTCT
ATATTCAGAATTTGAAT
ORF - retro_chof_997 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.83 % |
| Parental protein coverage: | 96.21 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SHLEIPVEQLMLELNLSEHAQKRTQNSK-GIFQLWSYPLNQESTLENRDFKKSSVETGFNVTNNAIRLFT |
| .HLEIP.EQL..ELNLSE.A.KRTQN.K.GIFQLW.YP.N.EST.ENRD.KKSSVET.FNVTN..I.LFT | |
| Retrocopy | NHLEIPLEQL-IELNLSELAYKRTQNNKQGIFQLWTYPFNEESTMENRDLKKSSVETDFNVTNKPIKLFT |
| Parental | LNHSLTSTAADKQVGSHPG--QPVPPGLCSPHPDGDFFKDRNEPHIKSCSTTENSHGETFSAP-SWNGKY |
| .N..LT.T...KQV...P...Q..P.GLC.P..DGDFFK.RN.PHI.S.S..EN...ETFSAP..WN.KY | |
| Retrocopy | QNRLLTDTSVEKQVCTYPELQQQMPLGLCWPYADGDFFKGRNDPHINSVSAIENNSDETFSAP<NWNLKY |
| Parental | GNSSAEENLTDESDLSESEKTNDALLSYFKKMD-LNLKPETIEDFEDSFTEEPSEVFPYPDFLPPPFNTL |
| GNSS.EENLTDESD.SE.EKT.D.LLSYFKKMD.LNLKPETIE.FE.SFTEEPSEVFPY.DFLPPPFNTL | |
| Retrocopy | GNSSVEENLTDESDFSENEKTIDILLSYFKKMD<LNLKPETIENFEESFTEEPSEVFPYRDFLPPPFNTL |
| Parental | DLHKLALSKSESWKAMVEPPESSIEHLITRLLEMERIQHMTIQKERSRPQTNLFTPAVTERPSSSKAVPK |
| DLHKLALSKSE.WKA.VEPPESSI.HL.TRLLEMERIQH.TIQKER.R.QT..F.PAV.ER..S.KA.PK | |
| Retrocopy | DLHKLALSKSENWKATVEPPESSIGHLVTRLLEMERIQHATIQKERPRLQTSFFSPAVNERLLSFKAIPK |
| Parental | VRQPKLSDALNVQPSCFDKSREKRKNHSGSYKIEQNASKWNWSNAGKYKWKTRPPSLKSSSTTKQLIVTY |
| V...KLS.....Q.S...KS.EKRK..SGS.KIEQNASKWN...AGKYK..TRP.SLKSSS.TKQ....Y | |
| Retrocopy | VKS-KLSHSFSLQTSYVAKSQEKRKSNSGSCKIEQNASKWNLNHAGKYK*NTRPLSLKSSSITKQFLAPY |
| Parental | DDFKNPKSSILNPCQELSSKPAAAQTTQSLVKIVSARCLPPRSPIPISPVPLSFPENQREEIKPPRTRKK |
| ..FKNPKSSILNPCQELS.KP.AAQ.TQ.LVK..SA.CLPPR.PIPISPVPLSFPENQREEIKPPRT.KK | |
| Retrocopy | KNFKNPKSSILNPCQELSTKPIAAQKTQ-LVKMISA*CLPPRFPIPISPVPLSFPENQREEIKPPRTKKK |
| Parental | LHRNTIL--KPFYIQKLN |
| L.R.......PFYIQ.LN | |
| Retrocopy | LYRKNVILNRPFYIQNLN |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_997 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000001891 | 1 retrocopy |
retro_chof_997 ,
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