RetrogeneDB ID: retro_chof_646

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_13052:3778..5267(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: DIS3
• Ensembl ID: ENSCHOG00000008758
• Aliases: None
• Description: DIS3 mitotic control homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:20604]

Sequence

>retro_chof_646
GACATGAAAAATTGAGAAGACCTGAAGCATCTGTATATTTGTAGTGTTGACCCAGCAGGATGTGCTGATATAGATGATGC
TCTACATTGTAGAGAACAAGGAAATGGAAAATTGGAGGTTGGTGTTCATGTTGCTGATGCTTAGCCATTTCATTGGGCCA
GGAAATGCTTTAGATCAAGAATCAGTCAGAAGAGGAACAACTGTGTATCTTTGTGAAAAGAGGATTGACGTGGTCCCAGA
GTTGCTTAGCTCTAACTTGTGTTCCTTAAGATGCGATGTGAACAGGCTGGCATTTTCATGTATTTGGGAAATGAATCACA
ATGCTGAAATCTTAAAAACAAGGTTTACAGAAAGTGCCATTAATTCAAAGGCTTCTCTTACATATGCTGAAGCTCAGATG
AGAATTGATTCAGCAACCATGAATGATGGATGATATTACTACTAGTCTCCGTGGACTAAATAAACTAGCTAAAATTTTGA
AAAAACTAAGAATTGGAAAAGGGGCCTTGACTCTTTCTTCCCCAGAAGTTCGATTTCACATGGACAGTGAAACTCATGAT
CCCATAGATCTGCAAACCAAGGAACTTAGAGAAACAGATTCCATGGTGGAAGAATTTACATTACTTGCTAATATCTCTGG
TGCAAAAAAAATTCATGAAGAATTTTCGGAATATGCCCTGCTTCGGAAACATCCTGCTCCTCCCCCATCAAATTATGAAA
TTCTTGTTAAGGCAGCCAAGTCCAACAATTTGGAAATTAATACTGATACAGCAAAGTCTCTGGCTGACTCTTTGGACCAG
GCTGAATCTCCTGCTTTCCCATCTCTAAATACTCTGTTAAGAATATTAACCATTCGCTGTATGATGCAAGCTGTTTACTT
CTGCTCTGGAATGGATAATGATTTTCATCACTATGGTTTAGCATCACCAATATATGCACATTTTACTTCACCCATCAGAA
GATATGCAGACATCATTGTTCATAGGTTGTTGGCAGTGGCTGTTGGAGCAGATTGTACTTATCCAGAGTTGACAGACAAA
CACAAGCTTTCAGATTTATGTAAAAATCTCAATTTCCAGCACAAAATGGCTCAATATGCCCAACGCGCATCAGTGGCATT
TCATACCCAGTTATTTCTCAAAAGCAAAGGAATAATAAGTGAAGAAGCCTATATTCTTTTTGTAAGAAAGAATGCTACTG
TGGTATTAATCCCAAAGTATGGTTTAGAAGGTACAGCCTTTTTGAAGAAAAGGACAAACCAAGGCCACGGCTTACTTATG
ATGATGAGATACCTTCACTTAAAATAGAAGATACAATCTTTCACATATTTGATAAAATTAAAGTGAAAATCATGTTAGAC
TCATCTAATCTTTAGCATCAGAAAATCCGAATGTCCCTGGTAGAACCACAGATACCAGGAATAAACATTCCTGCTGATAT
TTCAAACATGGATATTAACAAGCCACAGAAAAAGAAGCAGCTTGGAAAA

Alignment

ORF - retro_chof_646 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.4 %
• Parental protein coverage: 56.3 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DMKNREDLRHLCICSVDPPGCTDIDDALHCRELGNGNLEVGVHIAD-VSHFIRPGNALDQESARRGTTVY
          DMKN.EDL.HL.ICSVDP.GC.DIDDALHCRE.GNG.LEVGVH.AD..SHFI.PGNALDQES.RRGTTVY
Retrocopy DMKN*EDLKHLYICSVDPAGCADIDDALHCREQGNGKLEVGVHVAD>LSHFIGPGNALDQESVRRGTTVY

Parental  LCEKRIDMVPELLSSNLCSLRCDVDRLAFSCIWEMNHNAEILKTXXXXXXXXXXASLTYAEAQMRIDSAT
          LCEKRID.VPELLSSNLCSLRCDV.RLAFSCIWEMNHNAEILKT..........ASLTYAEAQMRIDSAT
Retrocopy LCEKRIDVVPELLSSNLCSLRCDVNRLAFSCIWEMNHNAEILKTRFTESAINSKASLTYAEAQMRIDSAT

Parental  MND-DITTS-LRGLNKLAKILKKRRIEKGALTLSSPEVRFHMDSETHDPIDLQTKELRETNSMVEEFMLL
          MND.D..T..LRGLNKLAKILKK.RI.KGALTLSSPEVRFHMDSETHDPIDLQTKELRET.SMVEEF.LL
Retrocopy MND>DDITTSLRGLNKLAKILKKLRIGKGALTLSSPEVRFHMDSETHDPIDLQTKELRETDSMVEEFTLL

Parental  ANISVAKKIHGEFSEHALLRKHPAPPPSNYEILVKAAKSKNLEIKTDTAKSLADSLDQAESPAFPYLNTL
          ANIS.....H.EFSE.ALLRKHPAPPPSNYEILVKAAKS.NLEI.TDTAKSLADSLDQAESPAFP.LNTL
Retrocopy ANISGXXXXHEEFSEYALLRKHPAPPPSNYEILVKAAKSNNLEINTDTAKSLADSLDQAESPAFPSLNTL

Parental  LRILATRCMMQAVYFCSGMDNDFHHYGLASPIYTHFTSPIRRYADIIVHRLLAVAIGADCTYPELTDKHK
          LRIL..RCMMQAVYFCSGMDNDFHHYGLASPIY.HFTSPIRRYADIIVHRLLAVA.GADCTYPELTDKHK
Retrocopy LRILTIRCMMQAVYFCSGMDNDFHHYGLASPIYAHFTSPIRRYADIIVHRLLAVAVGADCTYPELTDKHK

Parental  LADLCKNLNFRHKMAQYAQRASVAFHTQLFFKSKGIISEEAYILFVRKNAIVVLIPKYGLEGTVF-FEEK
          L.DLCKNLNF.HKMAQYAQRASVAFHTQLF.KSKGIISEEAYILFVRKNA.VVLIPKYGLEGT.F.FEEK
Retrocopy LSDLCKNLNFQHKMAQYAQRASVAFHTQLFLKSKGIISEEAYILFVRKNATVVLIPKYGLEGTAF<FEEK

Parental  DKPKPRLTYDDEIPSLKIEDTVFHIFDKVKVKIMLDSSNLQHQKIRMSLVEPQIPGVSIPADISNMNINE
          DKP.PRLTYDDEIPSLKIEDT.FHIFDK.KVKIMLDSSNL.HQKIRMSLVEPQIPG..IPADISNM.IN.
Retrocopy DKPRPRLTYDDEIPSLKIEDTIFHIFDKIKVKIMLDSSNL*HQKIRMSLVEPQIPGINIPADISNMDINK

Parental  PQKKKKKLGK
          PQ.KKK.LGK
Retrocopy PQ-KKKQLGK

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_646 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	ENSCHOG00000008758	1 retrocopy	retro_chof_646 ,