RetrogeneDB ID: retro_chof_2437

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_75046:6545..7265(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSR
• Ensembl ID: ENSCHOG00000009523
• Aliases: None
• Description: glutathione reductase [Source:HGNC Symbol;Acc:4623]

Sequence

>retro_chof_2437
ATCATCAGTTCAAACTGCAGTGAAGAGCTGGAGAATGCTGGCATAGATGTCCTGAAATAATCCCAGGTCAGGGAAGTTAA
ACAGACCACGTCTGGCTTAGAACTCCACATGGTCAGTGCTGTTCCCGGAAGGTCACCCATCTCTGCCACGATTGAGCACG
TTGACTGCCTGCTGTAGGCCATTGGGTGGGACCCAAATTCCAGCAGCCTCAACTTAAGTGAACTGGGTATTCAGACCGAT
GAGAGAGGTCATATCCTAGTAGATGAATTCCAGAACACCAACATAAAAGGCATCTATGCAGTTGGGGATGTGTGTGGAAA
AGCTCTTCTTACACCAGTTGCAATAGCAGCTGGCCAAAAACTTGCCCATAGACTTTTTGAAGGCAAAGAAGATTCCAAAT
TAGACTATGAGAACATTCCTACAGTGGTCTTCAGCCACCCGCCTATTGGGACAGTGGGGCTCAAGGAAGATCAGGCAGTT
TCTAAATATGGACAAGAAAATGTGAAGATCTATTCAACCTCCTTTATGCCGATGTATCATGCAGTTACTAGAAGGAAAAC
AAAATGTGTGATGAAAATGATTTGTGCCAACGAAGAGGAAAAGGTGGTTGGGATACATATGCAGGGACTGGGGTGTGATG
AAATGCTACAGGGCTTTGCCGTTGCGGTGAAAATGGGAGCTTCCAAGGCTGACTTTGACAACACAGTTGCCATTCACCCT

Alignment

ORF - retro_chof_2437 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.92 %
• Parental protein coverage: 57.14 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VISSNCTEELENAGIEVLKYSQVREVKQTTSGLELCMVTAVPGRSPISATIEHVDCLLWAIGRDPNSSSL
          .ISSNC.EELENAGI.VLK.SQVREVKQTTSGLEL.MV.AVPGRSPISATIEHVDCLL.AIG.DPNSSSL
Retrocopy IISSNCSEELENAGIDVLK*SQVREVKQTTSGLELHMVSAVPGRSPISATIEHVDCLL*AIGWDPNSSSL

Parental  NLSELGIQTDERGHILVDEFQNTNVKGIYAVGDVCGKALLTPVAIAAGRKLAHRLFEGKEDSKLDYENIP
          NLSELGIQTDERGHILVDEFQNTN.KGIYAVGDVCGKALLTPVAIAAG.KLAHRLFEGKEDSKLDYENIP
Retrocopy NLSELGIQTDERGHILVDEFQNTNIKGIYAVGDVCGKALLTPVAIAAGQKLAHRLFEGKEDSKLDYENIP

Parental  TVVFSHPPIGTVGLTEDQAVYKYGQENVKIYSTSFTPMYHGVTRRKTKCVMKVICANKEEKVVGIHMQGL
          TVVFSHPPIGTVGL.EDQAV.KYGQENVKIYSTSF.PMYH.VTRRKTKCVMK.ICAN.EEKVVGIHMQGL
Retrocopy TVVFSHPPIGTVGLKEDQAVSKYGQENVKIYSTSFMPMYHAVTRRKTKCVMKMICANEEEKVVGIHMQGL

Parental  GCDEMLQGFAVAVKMGATKADFDNTVAIHP
          GCDEMLQGFAVAVKMGA.KADFDNTVAIHP
Retrocopy GCDEMLQGFAVAVKMGASKADFDNTVAIHP

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_2437 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007115	1 retrocopy	retro_btau_1296,
Choloepus hoffmanni	ENSCHOG00000009523	1 retrocopy	retro_chof_2437 ,
Monodelphis domestica	ENSMODG00000019004	1 retrocopy	retro_mdom_1042,