RetrogeneDB ID: retro_chof_1586

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_33249:9582..9960(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000004876
• Aliases: None
• Description: None

Sequence

>retro_chof_1586
CCCATTTCTGCAAAAAAAGTGATGCAATTTATTAGGATGGGATGTAAGTTACTGGGGGCAAAAAGCTTCTGCAGCTCTGC
TTTATTGTGAGGAGTTGGAGCTGGAGGGCTTTTGTGGTGGCAGCAGCCAGGGGACTAGATTGCCAGCACACAGGAGACCT
GTGTCTTGAAGAGCAGGATCTTCTCCTCATCCATGGGGGTGACCTCTGTACCATCTGGGATGTAGTGGCCACATTCTGAT
GGGATGGCTGAATTGCATGCAGGGTGGTGGAGGCCAGGGGCCAGCATAGCTGGAGCAGCGATCTCCTGGCCATCTATTAG
TCTTCCGTTCATGTGTTTCAGTGCCTTCTCGGCTTCATCCAGATTCTCAAACTCAACA

Alignment

ORF - retro_chof_1586 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.63 %
• Parental protein coverage: 77.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  PPLTRKVTKCSRTGHK-FWGQGLLPLLR--EELELER-LRWRRRPGD-RERRRTGDLRLGERD-LLLIRG
          P....KV....R.G.K..WGQ.....L...EELELE..L.W...PGD......TGDL.L.E.D.LL...G
Retrocopy PISAKKVMQFIRMGCK>YWGQKASAALLYCEELELEG<LLWWQQPGD<LDCQHTGDLCLEEQDLLLIHGG

Parental  G-DLRHMGGGGSILLGGLKRRGGGRGQG-ASTAVAVISWPSICPPPSMCFSAFSASSGFSNST
          ...L.H.G..G.IL.G.L....GG.GQG.AS.A.A.ISWPSI..P..MCFSAFSASS.FSNST
Retrocopy D<PLYHLGCSGHILMGWLNCMQGGGGQG<ASIAGAAISWPSISLP-FMCFSAFSASSRFSNST

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_1586 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004876	3 retrocopies	retro_chof_1586 , retro_chof_1986, retro_chof_2273,
Homo sapiens	ENSG00000167970	1 retrocopy	retro_hsap_3023,
Tursiops truncatus	ENSTTRG00000008219	1 retrocopy	retro_ttru_1557,
Vicugna pacos	ENSVPAG00000009975	1 retrocopy	retro_vpac_116,