RetrogeneDB ID: retro_chof_48

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_53734:4845..5469(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000011034
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000012958
• Aliases: None
• Description: None

Sequence

>retro_chof_48
ATGAGCTGCACCATCGAGAAGATCCTGACAGACGCCAAGACGCTGCTGGAGAGGCTGCGGGAGCATGATGCGGCCGCCGA
ATCGCTGGTGGATCAGTCGGCGGCGCTGCACCGGCGGGTGGCAGCTATGCGGGAGGCAGGGGCAGCGCTTCCGGACCAGT
GTCAAGAGGATGCATCCGATATGAAGGACGTGTCCAAATACAAACCACACATTCTGCTGTCCCAAGAGAACACACAGATT
AGAGACTTGCAACAGGAAAACAGAGAACTATGGGTTTCCTTGGAGGAACACCAAGATGCCTTGGAACTCATCATGAGCAA
GTACCGGAAACAGATGTTACAGTTAATGGTTGCTAAGAAAGCAGTGGATGCCGAACCGATCCTGAAAGCTCACCAGTCCC
ACTCTGCAGAAATAGAGAGTCAGATTGACAGAATCTGTGAAATGGGAGAAGTGATGAGGAAAGCTGTTCAGGTAGATGAT
GACCGGTTTTGTAAGATTCAGGAAAAACTAGCCCAATTAGAGCTTGAAAATAAGGAACTTCGAGAATTATTATCCATCAG
CAGTGAGTCCCTTCAGGTCAGGAAGGAAGATTCAATGGATACTGCATCCCAAGCCATCAGATAA

Alignment

ORF - retro_chof_48 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.15 %
• Parental protein coverage: 55.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LWVSLEEHQDALELIMSKYRKQMLQLMVAKKAVDAEPILKAHQSHSAEIESQIDRICEMGEVMRKAVQVD
          LWVSLEEHQDALELIMSKYRKQMLQLMVAKKAVDAEPILKAHQSHSAEIESQIDRICEMGEVMRKAVQVD
Retrocopy LWVSLEEHQDALELIMSKYRKQMLQLMVAKKAVDAEPILKAHQSHSAEIESQIDRICEMGEVMRKAVQVD

Parental  DDQFCKIQEKLAQLELENKELRELLSISSESLQVRKEDSMDTASQAIR
          DD.FCKIQEKLAQLELENKELRELLSISSESLQVRKEDSMDTASQAIR
Retrocopy DDRFCKIQEKLAQLELENKELRELLSISSESLQVRKEDSMDTASQAIR

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_48 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.

---

Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012958	1 retrocopy	retro_chof_48 ,
Echinops telfairi	ENSETEG00000007805	1 retrocopy	retro_etel_615,
Loxodonta africana	ENSLAFG00000010502	1 retrocopy	retro_lafr_565,
Microcebus murinus	ENSMICG00000015446	1 retrocopy	retro_mmur_738,
Otolemur garnettii	ENSOGAG00000005952	2 retrocopies	retro_ogar_1794, retro_ogar_2028,
Ictidomys tridecemlineatus	ENSSTOG00000001684	1 retrocopy	retro_itri_1447,
Tupaia belangeri	ENSTBEG00000007772	1 retrocopy	retro_tbel_2455,