RetrogeneDB ID: retro_chof_213

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: GeneScaffold_4675:76570..76894(-)
• Located in intron of: ENSCHOG00000005609

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000000884
• Aliases: None
• Description: None

Sequence

>retro_chof_213
CAGTTCTGCCTTGAGCTAAATGGACTTGCTGTCAAACTTCAGTCTGAGTGCCATCTAGATACATGTACTCAGATGACAGC
AACTGAACAATGGAGTTTTCTTTGTGCAGCTCATAAAGCTCCAAGAGAGTGTCCTGCCATAGACTACACAAGGCACACAC
TTGTTAGTGCTGCATGTCTTCTGGATAGTAATAAATATTTTAGAGTTAGCATAAAGGAATCACCTGTAGCAAAACTAGGA
ACAGTATGTCATAGGATTTACAGAATATTTTCATATGCTTATTTTCATCACTGGCAGATATTTGATGAATGTGAAAATGA
AATA

Alignment

ORF - retro_chof_213 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.82 %
• Parental protein coverage: 53.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QFCLELNGLAVKLQSECHPDTCTQMTATEQWIFLCAAHKTPKERPAIDYTRHTCDGVACLLNSNKYFLSR
          QFCLELNGLAVKLQSECH.DTCTQMTATEQW.FLCAAHK.P.E.PAIDYTRHT....ACLL.SNKYF..R
Retrocopy QFCLELNGLAVKLQSECHLDTCTQMTATEQWSFLCAAHKAPRECPAIDYTRHTLVSAACLLDSNKYF--R

Parental  VSIKESSVAKPGSVCCRI-RIFSHAYFHHWQIFDEYDNEI
          VSIKES.VAK.G.VC.RI.RIFS.AYFHHWQIFDE..NEI
Retrocopy VSIKESPVAKLGTVCHRIYRIFSYAYFHHWQIFDECENEI

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_213 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 5 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000884	5 retrocopies	retro_chof_1077, retro_chof_1354, retro_chof_1631, retro_chof_177, retro_chof_213 ,
Dasypus novemcinctus	ENSDNOG00000008252	1 retrocopy	retro_dnov_211,
Homo sapiens	ENSG00000115540	2 retrocopies	retro_hsap_2275, retro_hsap_906,
Latimeria chalumnae	ENSLACG00000015430	1 retrocopy	retro_lcha_112,
Oryctolagus cuniculus	ENSOCUG00000005712	1 retrocopy	retro_ocun_30,