RetrogeneDB ID: retro_chof_605

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_126123:302..956(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WRNIP1
• Ensembl ID: ENSCHOG00000002843
• Aliases: None
• Description: Werner helicase interacting protein 1 [Source:HGNC Symbol;Acc:20876]

Sequence

>retro_chof_605
ATTGATGAGATTCATTGGTTCAATAAATCTAAGCAGGACACTTTCCTTCCTCTTGTGGTTTGTGGGAGGATTACTCGGGC
AACCACTGAGAAGCCCTCCTTCCTGGTCAAGCTAGTCTTCTGAGCCACTGTTGGGTTATTGTTCTTGAGAAGCATCCAGT
AGAAACAAGGTGACTGTTTTAACAAAAACAATCAACTTCCTGGGATCCCAAGTCCTGGACTTCAGCTGTCCCATTGACCC
TCTGAGTCACAGCTGCAACAGCAGCTCTGAGCCCTCAGTGTTCATAGAAGACAAAGATGTGCATATTCTGGTATTCCTCA
GTGATGGCAATGCCAGAGCTTGATTGAATGCACTGCAGCTGGTTGTTCTGGCCAGCTGAGTTTCTAGGCAGATGTTTTGT
AAGACAAGTGGGCAAATGCATTCTTCCAGTAGAGTTCTGATCCCTGAAAATGACATTAGGGAAGGGGTTCAGCAAACCCA
CTTTTTATATGACTGAACAGGAAAAGAGCATTACAACTGCATTTCTGCATCTGATAAGCCCATGTGTGGTTCAGAACAGA
AAGCCTCCCTCTACCAGCTTGCTCCCATGCTGGAAGGAAATGAGGACCTGCTGTATGTGTCAGGCTGTTTGTGAGGTTTG
CCAGCAAGAACATA

Alignment

ORF - retro_chof_605 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.73 %
• Parental protein coverage: 56.96 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LDEIHRFIXXXXDTFLPHVECGTITLIGATTENPSFQVN-AALLSRCRVIVLEKLPVEAM-VTILMRAIN
          .DEIH.F.....DTFLP.V.CG.IT...ATTE.PSF.V..A.LLS.C.VIVLEK.PVE...VT.L...IN
Retrocopy IDEIHWFNKSKQDTFLPLVVCGRITR--ATTEKPSFLVK<ASLLSHCWVIVLEKHPVETR<VTVLTKTIN

Parental  SLGIHVLDSSRPTDPLSHSSNSNSEPSVFIEDKAVDTLAYLSDGDARAGLNGLQLAVLARLSSRKMFCKK
          .LG..VLD.S.P.DPLSHS.NS.SEPSVFIEDK.V..L..LSDG.ARA.LN.LQL.VLA...SR.MFCK.
Retrocopy FLGSQVLDFSCPIDPLSHSCNSSSEPSVFIEDKDVHILVFLSDGNARA*LNALQLVVLAS*VSRQMFCKT

Parental  SGQTYSPSRVLITENDVKEGLQRSHILYDRAGEEHYNCISALHKSMRGSDQNASLYWLARMLEGGEDPLY
          SGQ..S.SRVLI.END..EG.Q..H.LYD..G.EHYNCISA..K.M.GS.Q.ASLY.LA.MLEG.ED.LY
Retrocopy SGQMHSSSRVLIPENDIREGVQQTHFLYD*TGKEHYNCISASDKPMCGSEQKASLYQLAPMLEGNEDLLY

Parental  VA-RRLVRFASEDI
          V..R..VRFAS..I
Retrocopy VS<RLFVRFASKNI

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_605 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002843	1 retrocopy	retro_chof_605 ,
Sus scrofa	ENSSSCG00000001010	1 retrocopy	retro_sscr_903,