RetrogeneDB ID: retro_chof_687

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_135120:2934..3148(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C12orf39
• Ensembl ID: ENSCHOG00000008256
• Aliases: None
• Description: chromosome 12 open reading frame 39 [Source:HGNC Symbol;Acc:28139]

Sequence

>retro_chof_687
TATCTCTCCTTTGCAGAGGGGCACTGCTTTATCTCTGACCAGAGCTGGAGGAAGGACCTCCCCAACTGGCCACCACTGGA
AAGGTGTAGCCCATTCCTAACCACTAACTCTTCCAGAGGCAACAGCTCTGTTACTCACTTCCTGTCAAAAACACAAGAAA
CCTGGAGGAGAAAACTTTAAGCAAACAAGGTTCTTGGAAGACAGTTTGCTAAAC

Alignment

ORF - retro_chof_687 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.64 %
• Parental protein coverage: 61.74 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YLKGAQGRRFISDQSRRKDLSDRPPPERRSP-YSQPLTLPEAAALLLASWQKPQEAGEENF-ETRFLEDS
          YL..A.G..FISDQS.RKDL....PP..R....S.PLTLPEA.ALLL.S.QK....G.ENF..TRFLEDS
Retrocopy YLSFAEGHCFISDQSWRKDLPNW-PPLERCS>HS*PLTLPEATALLLTSCQKHKKPGGENFKQTRFLEDS

Parental  LLS
          LL.
Retrocopy LLN

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_687 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008256	1 retrocopy	retro_chof_687 ,