RetrogeneDB ID: retro_chof_2072

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_47634:618..941(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZFAND6
• Ensembl ID: ENSCHOG00000009491
• Aliases: None
• Description: zinc finger, AN1-type domain 6 [Source:HGNC Symbol;Acc:30164]

Sequence

>retro_chof_2072
TGTTCCACTGGCCACGGATTTATGGTAACCCTTGTACAAATGGCATGTGTTCAGTGTACTATAGAGAGCATCTTCAAATA
CAGAATAGTAGGAATGTTAGAATAAGCCCCCTTGTAGCTTCTGTCAGTAGTCTTTGTGAATCTTTACCAGTTCAGTGCAC
AGATGACAGTGTCCCAGCGGTTCGGTCAACATTAGACTCCACATCTTCATATATGCAGCCAAGTCCTGTATCGAATCAGT
CACTTTTATCAGAATCTGTAGCATCTTCCCAAGAGGACAGTACATTTGTGACAAAGCAGTACCTGAAAACAGAAGATCTG
CAA

Alignment

ORF - retro_chof_2072 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.57 %
• Parental protein coverage: 67.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  CSTGCGF-YGNPRTNGMCSVCYKEHLQRQNSSNGRISPSATSVSSLSESLPVQCTDGSVPEVQSTLDSTS
          CSTG.GF.YGNP.TNGMCSV.Y.EHLQ.QNS.N.RISP...SVSSL.ESLPVQCTD.SVP.V.STLDSTS
Retrocopy CSTGHGF<YGNPCTNGMCSVYYREHLQIQNSRNVRISPLVASVSSLCESLPVQCTDDSVPAVRSTLDSTS

Parental  SSMQPXXXXXXXXXXXXXXXXQVDSTSV-DKAVPE-TEDLQ
          S.MQP................Q.DST.V.DKAVPE.TEDLQ
Retrocopy SYMQPSPVSNQSLLSESVASSQEDSTFV<DKAVPE>TEDLQ

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_2072 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 12 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012321	1 retrocopy	retro_btau_593,
Choloepus hoffmanni	ENSCHOG00000002366	2 retrocopies	retro_chof_1050, retro_chof_1846,
Choloepus hoffmanni	ENSCHOG00000009491	2 retrocopies	retro_chof_1516, retro_chof_2072 ,
Felis catus	ENSFCAG00000012931	2 retrocopies	retro_fcat_1024, retro_fcat_1998,
Homo sapiens	ENSG00000086666	1 retrocopy	retro_hsap_4153,
Gorilla gorilla	ENSGGOG00000015621	1 retrocopy	retro_ggor_2790,
Loxodonta africana	ENSLAFG00000006722	1 retrocopy	retro_lafr_587,
Monodelphis domestica	ENSMODG00000019428	1 retrocopy	retro_mdom_685,
Nomascus leucogenys	ENSNLEG00000008870	1 retrocopy	retro_nleu_1387,
Pan troglodytes	ENSPTRG00000007361	2 retrocopies	retro_ptro_1375, retro_ptro_2824,
Rattus norvegicus	ENSRNOG00000013506	1 retrocopy	retro_rnor_2019,
Sus scrofa	ENSSSCG00000001779	2 retrocopies	retro_sscr_1206, retro_sscr_1207,