RetrogeneDB ID: retro_chof_2523

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_82348:13..505(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000013068
• Aliases: None
• Description: None

Sequence

>retro_chof_2523
ATGGCTGAGAGAGACCCAGGCAGCAACCGGAGGCAGAATGAGGAAATTGAAGCAATGGCAGCTATATATGGCAAGGAGTG
GTGTGTCATGGATAACTCTGCCAAAATATTCTATATTAAAATTAATGACAATAAAGATGACCCCAAATGGACACTTGGCT
TGCAGGTGATGCTACCTAATGAATGTCCAGAGACAGCCCCACCTATTTATGACCTGAAATCTCCTTGGCTTAATGGGCAA
GAACGTGTGGATTTATCGAATAGCCTTGAGGAAATATATATACAAAATACTGGTGAAAGTATTCTCTACCTATGGGTGGA
GAAAATAAGAGATGTTTTAATACAAAAATCTCATAAGGCAGAACCAGGCCCTGAAGTAAAGAAGAAAACTGAAGAGGAAG
ATGTTGAGTGTGAAGATGATTTCATTTTAGCTTGCCAGCCAGAATATTCAGTTAAAGCACTGGATTTTGAGATCAGTGAA
AATCAAGGAATT

Alignment

ORF - retro_chof_2523 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.29 %
• Parental protein coverage: 51.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGRDPGSNQRQNEEIEAMAAIYGEEWCVMDNCAKIFYIKINDNKDDPKWTLGLQVMLPNEYPETAPPIY
          MA.RDPGSN.RQNEEIEAMAAIYG.EWCVMDN.AKIFYIKINDNKDDPKWTLGLQVMLPNE.PETAPPIY
Retrocopy MAERDPGSNRRQNEEIEAMAAIYGKEWCVMDNSAKIFYIKINDNKDDPKWTLGLQVMLPNECPETAPPIY

Parental  ELKAPWLNGQERVDLSNSLEEIYIQNIGESILYLWVEKIRDVLIQKSHKAETGPEVKKKTEEEDVECEDD
          .LK.PWLNGQERVDLSNSLEEIYIQN.GESILYLWVEKIRDVLIQKSHKAE.GPEVKKKTEEEDVECEDD
Retrocopy DLKSPWLNGQERVDLSNSLEEIYIQNTGESILYLWVEKIRDVLIQKSHKAEPGPEVKKKTEEEDVECEDD

Parental  FILACQPEYSVKALDFEISENETI
          FILACQPEYSVKALDFEISEN..I
Retrocopy FILACQPEYSVKALDFEISENQGI

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_2523 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
Choloepus hoffmanni	ENSCHOG00000013068	1 retrocopy	retro_chof_2523 ,
Erinaceus europaeus	ENSEEUG00000003962	1 retrocopy	retro_eeur_409,
Homo sapiens	ENSG00000154059	1 retrocopy	retro_hsap_3341,
Macaca mulatta	ENSMMUG00000004664	1 retrocopy	retro_mmul_1041,
Nomascus leucogenys	ENSNLEG00000006582	1 retrocopy	retro_nleu_1166,
Pongo abelii	ENSPPYG00000009071	1 retrocopy	retro_pabe_2753,
Pan troglodytes	ENSPTRG00000009927	1 retrocopy	retro_ptro_2141,
Sorex araneus	ENSSARG00000002836	1 retrocopy	retro_sara_719,