RetrogeneDB ID: retro_chof_31

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_212118:3030..3390(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000001245
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000000543
• Aliases: None
• Description: None

Sequence

>retro_chof_31
GACTGGACTGAACCATGGCTGATGGGACTTGCTCTCTTTCATGTCCTCTGCCTGCTGCTCACTTGTTTCTCATTCCAAAA
TTATAAACTACAGATTGGGCATTTTCTGTGCCTAGTAATTTTAGTCTATTGTGCTGAATATATCAATGAAGTAGCTGCAA
TGAACTGGAGGATATTTTCAAAACACCAGTATTTTGATTCAAGAGGGATGTTCATTTCTATAGTATTTTCAGCTCCACTG
CTCTTGAATGCCATGATTATTGTGATTATGTGGGTATGTAAGACTTTGAATGTAATGATTGACCTGAGGAATTTACAAGA
GAAAAGAAAAAGAAAGAAGAGGCGAAGAAAAGAAGAATAA

Alignment

ORF - retro_chof_31 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.03 %
• Parental protein coverage: 98.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DWTEPWLMGLALFHVLCLLLTCFSFQNYKLQIGHFLCLXXXXXXXXXXXXXXXXXXXIFSKHQYFDSRGM
          DWTEPWLMGLALFHVLCLLLTCFSFQNYKLQIGHFLCL...................IFSKHQYFDSRGM
Retrocopy DWTEPWLMGLALFHVLCLLLTCFSFQNYKLQIGHFLCLVILVYCAEYINEVAAMNWRIFSKHQYFDSRGM

Parental  FISIVFSAPLLLNAMIIVIMWVCKTLNVMIDLRNLQEKRKRKKRRRKEE
          FISIVFSAPLLLNAMIIVIMWVCKTLNVMIDLRNLQEKRKRKKRRRKEE
Retrocopy FISIVFSAPLLLNAMIIVIMWVCKTLNVMIDLRNLQEKRKRKKRRRKEE

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_31 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000543	1 retrocopy	retro_chof_31 ,
Cavia porcellus	ENSCPOG00000012522	1 retrocopy	retro_cpor_1298,
Dipodomys ordii	ENSDORG00000001854	1 retrocopy	retro_dord_416,
Equus caballus	ENSECAG00000008640	1 retrocopy	retro_ecab_596,
Monodelphis domestica	ENSMODG00000014284	1 retrocopy	retro_mdom_790,