RetrogeneDB ID: retro_chof_859

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_156752:456..788(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000000992
• Aliases: None
• Description: None

Sequence

>retro_chof_859
GTTAACCTATTCCAGTAAAGTACAAAATGGCTTGATGATCTCAGAACAGAAAGAGGAAGTGATGTTATCATCATGCTACT
GGAAATAAAACATATCTTGCTGATAAGAGGCAAGTGTCAAATGTGGAGGGAGAGAGGAAAGCCAAAGAACTGAATGTCAT
GTTTGCTGAAAATAGTGCAAAAGCAGGATACAATGTAAACCAGCTCTTCAGATGTGTTGCAGGAACATTGCCTGGAATTT
CTAGTACACAGGACAGATGCAGAGAAGACATGATTGACATAAAACTGGAAAAGCCTCAGGAGCAGCCCATCAGGGAAGGA
AGCTGTTCCTGC

Alignment

ORF - retro_chof_859 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.36 %
• Parental protein coverage: 60.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VNSFQQTTKWIDDVRTERGSDVIIMLV-GNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQL
          VN.FQ..TKW.DD.RTERGSDVIIML..GNKT.LADKRQVS..EGERKAKELNVMF.E.SAKAGYNV.QL
Retrocopy VNLFQ*STKWLDDLRTERGSDVIIMLL<GNKTYLADKRQVSNVEGERKAKELNVMFAENSAKAGYNVNQL

Parental  FRRVAAALPGMESTQDRSREDMIDIKLEKPQEQPVSEGGCSC
          FR.VA..LPG..STQDR.REDMIDIKLEKPQEQP..EG.CSC
Retrocopy FRCVAGTLPGISSTQDRCREDMIDIKLEKPQEQPIREGSCSC

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_859 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 5 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000992	1 retrocopy	retro_chof_859 ,
Homo sapiens	ENSG00000175582	1 retrocopy	retro_hsap_7,
Nomascus leucogenys	ENSNLEG00000017098	1 retrocopy	retro_nleu_200,
Pongo abelii	ENSPPYG00000003663	3 retrocopies	retro_pabe_2097, retro_pabe_2191, retro_pabe_3537,
Ictidomys tridecemlineatus	ENSSTOG00000023497	3 retrocopies	retro_itri_1743, retro_itri_1827, retro_itri_1885,