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 symbol: FAM217A
• Ensembl ID: ENSCHOG00000001891
• Aliases: None
• Description: family with sequence similarity 217, member A [Source:HGNC Symbol;Acc:21362]

Sequence

>retro_chof_997
AACCATTTGGAAATTCCACTAGAGCAACTGATAGAACTTAATTTGTCAGAGCTGGCTTACAAAAGAACCCAGAATAATAA
ACAAGGGATATTTCAGTTATGGACTTATCCTTTTAATGAAGAAAGCACCATGGAGAACAGAGATTTAAAAAAATCTTCAG
TGGAAACTGACTTTAATGTAACCAATAAGCCCATAAAGCTCTTCACTCAGAACCGCTTACTAACAGACACTTCAGTTGAG
AAGCAAGTCTGTACCTACCCTGAACTACAACAACAGATGCCATTAGGTCTCTGCTGGCCCTATGCTGATGGAGACTTTTT
TAAAGGCAGAAATGATCCTCATATTAATTCAGTTTCAGCTATAGAAAACAACAGTGATGAAACTTTTTCTGCTCCAATTG
GAATTTGAAATATGGAAACAGCAGTGTGGAAGAAAATTTAACAGATGAAAGTGATTTTTCAGAAAATGAAAAAACAATTG
ATATTTTACTCAGCTATTTTAAAAAGATGGACTGAACTTAAAGCCAGAAACAATAGAAAACTTTGAAGAATCTTTCACAG
AGGAGCCAAGTGAAGTATTTCCATATCGTGATTTTCTCCCACCACCCTTTAATACTCTGGACTTGCACAAATTAGCCCTC
TCAAAATCTGAAAATTGGAAAGCAACAGTGGAGCCCCCAGAAAGCTCTATTGGACACTTGGTAACTCGTTTACTGGAAAT
GGAAAGAATACAACATGCGACTATACAAAAAGAGAGGCCAAGACTACAAACCAGCTTCTTCTCTCCAGCAGTTAATGAAC
GACTCTTATCCTTCAAAGCTATACCCAAAGTGAAGTCAAAACTTTCTCATTCTTTCAGTCTTCAGACATCTTATGTAGCT
AAAAGTCAAGAAAAAAGAAAAAGCAATTCTGGTTCTTGCAAGATTGAACAAAATGCTTCAAAATGGAATTTGAACCATGC
TGGAAAGTACAAATAGAATACTAGACCACTATCTCTAAAAAGTTCATCCATCACAAAACAATTTCTTGCACCTTATAAAA
ACTTTAAAAATCCCAAGAGCTCCATTTTAAATCCATGCCAAGAACTCTCAACCAAGCCTATTGCTGCCCAAAAAACACAG
TTGGTAAAAATGATCTCAGCATGATGTCTGCCACCAAGGTTTCCAATACCAATTTCACCTGTACCTTTGTCTTTTCCTGA
AAATCAGAGGGAAGAAATTAAGCCACCAAGGACCAAAAAGAAACTTTACAGAAAAAATGTGATATTGAACAGACCATTCT
ATATTCAGAATTTGAAT

Alignment

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

Expression

RNA-Seq

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST

Choloepus hoffmanni was not studied using EST data.

TSS

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab

retro_chof_997 was not experimentally validated.

Homology

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.

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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 ,