RetrogeneDB ID: retro_chof_2303

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_64656:3045..3682(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BFAR
• Ensembl ID: ENSCHOG00000000592
• Aliases: None
• Description: bifunctional apoptosis regulator [Source:HGNC Symbol;Acc:17613]

Sequence

>retro_chof_2303
ATGGAGGAGCCTCAGAAAAATGATCTGAACATGCTGAGCCTTGAGAAGGATGACTCTCTCAAAAGTGCCAGCCCTCAGAT
TTCCGTTAGTGAATTTTCGTGCCACTGCTGTTACGACATCCTGGTTAACCCTACCACCTTGAACTGTGGGCATAGCTTCT
GCCGGCACTGCCTAGCTTTATGGTGGGTGTCTTAGAAGAAAACAGTGTCCAGAATGCAGAGAAAAATGGGAAGGTTTCCC
TAAAGTCAATATCCTCCTCAGGGATGCCATTGTAAAATTATTCCCTGATGCTGTAAGAATGAGATTTCCTTGCATTCAGC
AGAGTCATGACATAGTCCAGAGTCTCGCAGCCTTTCAAAAATATGGGAATGATCAGATTCCCTTCACTCCCAACACAGGC
CGAGTGAATCAGCAGAGAGGAGGAGGATTCTTTTCTGGAGTGCTCACAGCTTTAACTGGTGTGGCAGTGGTCCTGCTCGT
GTATCACTGGAGCAGCAGGGAATCTGAGCACGACCTCCTGGTCCGCAAGGCTGTGGCCAAATGGACAGCGGAAGAAGTTG
TTCTCTGGCTGGAGCAGCTGGGCCCCTGGGCCGCTCTCTACAGAGACAGGTTTTTATCTGAAAGAGTAAATGGAAGG

Alignment

ORF - retro_chof_2303 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.99 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEEPQKNDLNMLSLEKDHSLKSASPQISVSEFSCHCCYDILVNPTTLNCGHSFCRHCLALWWVSS-KKTE
          MEEPQKNDLNMLSLEKD.SLKSASPQISVSEFSCHCCYDILVNPTTLNCGHSFCRHCLAL.W..S.....
Retrocopy MEEPQKNDLNMLSLEKDDSLKSASPQISVSEFSCHCCYDILVNPTTLNCGHSFCRHCLAL-WWVS>RRKQ

Parental  CPECREKWEGFPRVNILLRDAIEKLFPDAVRMRFEDIQQ-HDIVQSLAAFQKYGNDQIPFTPNTGRVNQQ
          CPECREKWEGFP.VNILLRDAI.KLFPDAVRMRF..IQQ.HDIVQSLAAFQKYGNDQIPFTPNTGRVNQQ
Retrocopy CPECREKWEGFPKVNILLRDAIVKLFPDAVRMRFPCIQQSHDIVQSLAAFQKYGNDQIPFTPNTGRVNQQ

Parental  RGGGFFSGVLTALTGVAVVLLVYHWSSRESEHDLLVHKAVAKWTAEEVVLWLEQLGPWAALYRDRFLSER
          RGGGFFSGVLTALTGVAVVLLVYHWSSRESEHDLLV.KAVAKWTAEEVVLWLEQLGPWAALYRDRFLSER
Retrocopy RGGGFFSGVLTALTGVAVVLLVYHWSSRESEHDLLVRKAVAKWTAEEVVLWLEQLGPWAALYRDRFLSER

Parental  VNGR
          VNGR
Retrocopy VNGR

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_2303 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000592	1 retrocopy	retro_chof_2303 ,
Macropus eugenii	ENSMEUG00000007566	1 retrocopy	retro_meug_86,
Myotis lucifugus	ENSMLUG00000005423	1 retrocopy	retro_mluc_1731,