RetrogeneDB ID: retro_chof_1889

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_41556:5888..6227(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKIP1
• Ensembl ID: ENSCHOG00000006233
• Aliases: None
• Description: A kinase (PRKA) interacting protein 1 [Source:HGNC Symbol;Acc:1170]

Sequence

>retro_chof_1889
ATGGAGAACTATCTGGCGGCCGCGGCGCTGAATGGGGTGAACCGACTTACTTTGCAGCGCTCGGCTAGGCTGGGTCAGGA
AGTGCTGGAGCGGGCCAAGAGGAGGGCAGTGGACTGGCACTCGCTGGAGCTCACCAAAGGCATCATCGGGGTCCTTGCCC
CGGAGAGGCCCGACCAGGAAAGACGACCGGCAACCGGTCCCCAGCGCCTTTTCCCAGAAGAGAGAGAAGAAAGACACCCA
ACCCTCAATGCTTCCTTCAGGACAATGGCTGAATTCATGGACTATACTTCAAGTCAGTGTGGGAAATATTATTCATCTGT
GCCAGAGGAAGGAGGGGCA

Alignment

ORF - retro_chof_1889 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100. %
• Parental protein coverage: 54.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MENYLAAAALNGVNRLTLQRSARLGQEVLERAKRRAVDWHSLELTKGIIGVLAPERPDQERRPATGPQRL
          MENYLAAAALNGVNRLTLQRSARLGQEVLERAKRRAVDWHSLELTKGIIGVLAPERPDQERRPATGPQRL
Retrocopy MENYLAAAALNGVNRLTLQRSARLGQEVLERAKRRAVDWHSLELTKGIIGVLAPERPDQERRPATGPQRL

Parental  FPEEREERHPTLNASFRTMAEFMDYTSSQCGKYYSSVPEEGGA
          FPEEREERHPTLNASFRTMAEFMDYTSSQCGKYYSSVPEEGGA
Retrocopy FPEEREERHPTLNASFRTMAEFMDYTSSQCGKYYSSVPEEGGA

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_1889 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
Choloepus hoffmanni	ENSCHOG00000006233	1 retrocopy	retro_chof_1889 ,
Pteropus vampyrus	ENSPVAG00000000411	1 retrocopy	retro_pvam_1460,
Rattus norvegicus	ENSRNOG00000013744	1 retrocopy	retro_rnor_1155,