RetrogeneDB ID: retro_chof_1174

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_218462:81..495(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WBP1L
• Ensembl ID: ENSCHOG00000007532
• Aliases: None
• Description: WW domain binding protein 1-like [Source:HGNC Symbol;Acc:23510]

Sequence

>retro_chof_1174
TCTCAAGACTACAACTTCTACTATGAACTCTGGTGGTTCTGACTGGTATGGACCATCATCATCATTCTGAGCTGCTGCTG
TGTATGCCACCACCGCCGAGCCAAGCGTCACTTTCAGGCCCAGAGTGGCAACATGAAATCAACTTAATTGCCTATCTGGA
AGCCCACAATTACTCAGCACTGCCATTTCCTTCGGGTTTTTGCCAAACTACTTACTACTCCCTTATGAAGAAATGGTGAG
CCAAGCTTCTGTTCCTCCCTCACCATACAGTACTTTCTAGCTACAGCAGCAGCAGCTGTCTCCACAGTCTGGCCCTGCAG
GCAATGACCCCCTGGGGACCAATTCCAACAATGGCCCCCTGGGGGTGCACTGCAACCCTTTGTCTAGTCCAGCAAAAGAA
GCAGGAGACCCCCT

Alignment

ORF - retro_chof_1174 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.31 %
• Parental protein coverage: 50.18 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SQCCNYYYELWWFWLVWTIIIILSCCCVCHHRRAKHRLQAQ-QRQHEINLIAYREAHSYSALPF-YFRFL
          SQ..N.YYELWWF.LVWTIIIILSCCCVCHHRRAK...QAQ...QHEINLIAY.EAH.YSALPF..F.FL
Retrocopy SQDYNFYYELWWF*LVWTIIIILSCCCVCHHRRAKRHFQAQ<EWQHEINLIAYLEAHNYSALPF<SFGFL

Parental  PNYLLPPYEEVVNRPPTPPPPYSAFQLQQQQLPPQCGSAGSSPPGADPTRGPQGVQSSPLSGP-SRSSTR
          PNYLL.PYEE.V.....PP.PYS.F.LQQQQL.PQ.G.AG..P.G.....GP.GV...PLS.P.S..S.R
Retrocopy PNYLLLPYEEMVSQASVPPSPYSTF*LQQQQLSPQSGPAGNDPLGTNSNNGPLGVHCNPLSSP<SKRSRR

Parental  PP
          PP
Retrocopy PP

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_1174 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014336	1 retrocopy	retro_btau_855,
Choloepus hoffmanni	ENSCHOG00000007532	1 retrocopy	retro_chof_1174 ,
Callithrix jacchus	ENSCJAG00000018079	1 retrocopy	retro_cjac_2235,
Homo sapiens	ENSG00000166272	1 retrocopy	retro_hsap_3774,
Macaca mulatta	ENSMMUG00000017596	1 retrocopy	retro_mmul_1640,
Pongo abelii	ENSPPYG00000002610	1 retrocopy	retro_pabe_3084,
Tupaia belangeri	ENSTBEG00000005555	1 retrocopy	retro_tbel_3660,
Tursiops truncatus	ENSTTRG00000012618	2 retrocopies	retro_ttru_138, retro_ttru_437,