RetrogeneDB ID: retro_chof_2375

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_69361:7416..7785(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GLRX2
• Ensembl ID: ENSCHOG00000007274
• Aliases: None
• Description: glutaredoxin 2 [Source:HGNC Symbol;Acc:16065]

Sequence

>retro_chof_2375
TCTGCATCTCGTAGGATGGGCAGCAGCATGTCATCTTTGGGGAAGTCAGCATTTGCTCTTGTGAACCAGATCCAAGAAAC
AATTTCAGATAATTGTGTGGTGATTTTCTCTAAAACATCATGTTCTTACTGTGTGGGGGCAAAAAACCTTTTCTGTGACA
TAAACATTAGCTATAAAGTTGTAGAAGTGGACATGCTTGAGTGTGGCTGCCAGTTTCAGGATGCTATTTACAAAATGGCT
GGTAAAAGAACCATGCCAATAATATTTGCCAGTGGAACTTTTATTGGAGGTGCAACCGATACTCATAGGCTTCACAAAGA
AGGGAAATTGCTTCCACTAGTTCATAAGTGTTATTTAAAAAAAGTAAAA

Alignment

ORF - retro_chof_2375 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.8 %
• Parental protein coverage: 77.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAARKMGSSTSSLGKSASAPVNQIQETISDNCVEILYKTSSS--TRAKKLFRDMGIKYKVVELDMLECGS
          .A.R.MGSS.SSLGKSA.A.VNQIQETISDNCV.I..KTS.S....AK.LF.D..I.YKVVE.DMLECG.
Retrocopy SASRRMGSSMSSLGKSAFALVNQIQETISDNCVVIFSKTSCSYCVGAKNLFCDINISYKVVEVDMLECGC

Parental  QFQDALYKMTGERTVPRIFVNGTFIGGAADTHRLHKEGKLLPLVHQCYLKKNK
          QFQDA.YKM.G.RT.P.IF..GTFIGGA.DTHRLHKEGKLLPLVH.CYLKK.K
Retrocopy QFQDAIYKMAGKRTMPIIFASGTFIGGATDTHRLHKEGKLLPLVHKCYLKKVK

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_2375 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 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000015972	1 retrocopy	retro_btau_543,
Choloepus hoffmanni	ENSCHOG00000007274	1 retrocopy	retro_chof_2375 ,
Callithrix jacchus	ENSCJAG00000008562	1 retrocopy	retro_cjac_643,
Equus caballus	ENSECAG00000015376	1 retrocopy	retro_ecab_169,
Felis catus	ENSFCAG00000025580	1 retrocopy	retro_fcat_733,
Myotis lucifugus	ENSMLUG00000015734	1 retrocopy	retro_mluc_1008,
Tupaia belangeri	ENSTBEG00000011216	1 retrocopy	retro_tbel_1638,
Drosophila melanogaster	FBgn0036820	1 retrocopy	retro_dmel_4,