RetrogeneDB ID: retro_mmul_688

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214725446:1899..2337(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000002193
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PWP1
• Ensembl ID: ENSMMUG00000015544
• Aliases: None
• Description: None

Sequence

>retro_mmul_688
GCTAAGTATGACTTATATAAATATGATGAGGAAGATGACCCAGATGCTGAGACTCTTGGTGAATCTCTCTTGGGTCTTAT
GGTCTACGGGAGTAATGATCAAGATCCTTACCTTACTCTGAAAGATACAGAACAATATGAACTTGAAGATTTCTTGCTTA
AGCCCAGTGATAATCTCATAGTTTGTGGCCGAGCTGAACAGGACCAGTGCAATTTAGAGGTGCATGTTTATAATCAAGAA
GAAGACTCTTTTTATGTACATCAGGATATACTCTTGTCTGCATATCCTCTGAGTGTGGAATGGCTGAATTTTGATCCTAG
CCCAGATGATTCTACTGGAAATTACATTGCTGTAGGAAACATGACCCCTGTTATTGAAGTGTGGGACCTTGATATAGTGG
ACTCTTTAGAGCCAGTCTTCATACTGGGAAGTAAACTT

Alignment

ORF - retro_mmul_688 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.52 %
• Parental protein coverage: 61.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AEYDLDKYDEEDDPDAETLGESLLGLTVYGSNDQDPYVTLKDTEQYEREDFLIKPSDNLIVCGRAEQDQC
          A.YDL.KYDEEDDPDAETLGESLLGL.VYGSNDQDPY.TLKDTEQYE.EDFL.KPSDNLIVCGRAEQDQC
Retrocopy AKYDLYKYDEEDDPDAETLGESLLGLMVYGSNDQDPYLTLKDTEQYELEDFLLKPSDNLIVCGRAEQDQC

Parental  NLEVHVYNQEEDSFYVHHDILLSAYPLSVEWLNFDPSPDDSTGNYIAVGNMTPVIEVWDLDIVDSLEPVF
          NLEVHVYNQEEDSFYVH.DILLSAYPLSVEWLNFDPSPDDSTGNYIAVGNMTPVIEVWDLDIVDSLEPVF
Retrocopy NLEVHVYNQEEDSFYVHQDILLSAYPLSVEWLNFDPSPDDSTGNYIAVGNMTPVIEVWDLDIVDSLEPVF

Parental  TLGSKL
          .LGSKL
Retrocopy ILGSKL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	16.02 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	10.63 RPM
SRP007412_cerebellum	0.00 RPM	14.21 RPM
SRP007412_heart	0.06 RPM	3.77 RPM
SRP007412_kidney	0.00 RPM	13.26 RPM
SRP007412_liver	0.00 RPM	5.23 RPM
SRP007412_testis	0.00 RPM	8.63 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_688 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_688 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_688 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000015544	1 retrocopy	retro_mmul_688 ,
Mus musculus	ENSMUSG00000001785	2 retrocopies	retro_mmus_1600, retro_mmus_3074,
Otolemur garnettii	ENSOGAG00000011940	2 retrocopies	retro_ogar_2999, retro_ogar_3444,
Rattus norvegicus	ENSRNOG00000005350	1 retrocopy	retro_rnor_646,
Tursiops truncatus	ENSTTRG00000011036	1 retrocopy	retro_ttru_540,