RetrogeneDB ID: retro_chof_1418

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_286994:252..594(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000004234
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000008485
• Aliases: None
• Description: None

Sequence

>retro_chof_1418
ATAAGCATGCAGGGACAGATAACAGATTCAAATATAAATGAGATTTTACATCCTCATATCCAAACTTTAGATCTACAGAG
CTGTGATATTTCAGATGCTGCTCTCCTGCACCTGCATAACTACAGAAAACTGAAGAAATTAAATTTTAATTCTTCAGAAG
AAAACAGAATGTCCGTAACTTCTGAAGGAATAAAAGTTGTGGCCTCATCTTGTTCATACCTGCCTGAAACTTCTTTGAAA
AGATGCTGCAGTCTCACTGATGAAGGAGTCCTTGCTCTCACATTCAATTGCTGGCTGCTAAAGATAATTGATTTGGGTGG
CTGCCTAAATATTATGGATTTG

Alignment

ORF - retro_chof_1418 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.58 %
• Parental protein coverage: 53.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSMQGQITDSNISEILHPQVQTLDLRSCDISDAALLHLRNCRKLKKLNLNSSKENRMSITSEGIKAVASS
          .SMQGQITDSNI.EILHP..QTLDL.SCDISDAALLHL.N.RKLKKLN.NSS.ENRMS.TSEGIK.VASS
Retrocopy ISMQGQITDSNINEILHPHIQTLDLQSCDISDAALLHLHNYRKLKKLNFNSSEENRMSVTSEGIKVVASS

Parental  CLYLHEASLKRCCNLTDEGVLALALNCRLLKIIDLGGCLGITDV
          C.YL.E.SLKRCC.LTDEGVLAL..NC.LLKIIDLGGCL.I.D.
Retrocopy CSYLPETSLKRCCSLTDEGVLALTFNCWLLKIIDLGGCLNIMDL

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_1418 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014156	1 retrocopy	retro_btau_1488,
Canis familiaris	ENSCAFG00000010668	1 retrocopy	retro_cfam_1650,
Choloepus hoffmanni	ENSCHOG00000008485	2 retrocopies	retro_chof_1418 , retro_chof_1459,