RetrogeneDB ID: retro_mmul_2618

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: X:94763068..94763624(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.13063
• Ensembl ID: ENSMMUG00000017312
• Aliases: ZRANB2, ZNF265
• Description: zinc finger Ran-binding domain-containing protein 2 [Source:RefSeq peptide;Acc:NP_001244565]

Sequence

>retro_mmul_2618
AATGTTGAATATATAGAATGAGAAGAATCTGAAGGTAAATATGATGAGTTTGGATATAAAAAGAAAAAATGCAGAGGGAA
ACCTGTTGGTCCTGCATCTATATGAAAGGAGGTTGATCAGAGGGAGAAGAAGAGGATGAGGATGAAGATCTTTCTAAATA
TAAATTAGATGAAGATGATGCTGATCTCTCAAAATATAATAATGATGTCAGTGAAGAAGATGATAGTAATAAAAAGAAAT
CCAATAGAAAAAGTCACTCAGTGCCTCAATCTTCACATTCACTATCTTCATCATGTTCATTCTCCCTTTCAAGTTCAACC
TCTAGGTCTAGGTTCCCTTCAAGAAGTTCTAGTTCGCAGTCAAGATCTTGTTCCAGTTCCAGAGAACATTTAAGATCTTC
TAGGTTGAAATCAAGATCCAGCTCCAGGTCCCAGAGGGGCTCACTAAACAACCCTGAGCCCAGGGCCAACCCTTACAGAA
CACGATTACTTTACCCAAGCACCACAGGTCATCTGGATCATCCCATTCTGGTTCCCATTCAAGTTCAAAAAATAAA

Alignment

ORF - retro_mmul_2618 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.71 %
• Parental protein coverage: 59.69 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NVEYIEREESDGEYDEFGRKKKKYRGKAVGPASILKEVEDKE-SEGEEEDEDEDLSKYKLDEDEDEDDAD
          NVEYIE.EES.G.YDEFG.KKKK.RGK.VGPASI.KEV...E..E..E.....DLSKYKLDED.....AD
Retrocopy NVEYIE*EESEGKYDEFGYKKKKCRGKPVGPASI*KEVDQRE<EEEDEDE---DLSKYKLDEDD----AD

Parental  LSKYNLDASEEEDSNKKKSNRRSRSKSRSSHSRSSSRSSSPSSSRSRSRSRSRSSSSSQSRSRSSSRERS
          LSKYN.D.SEE.DSNKKKSNR.S.S...SSHS.SSS.S.S.SSS.SRSR..SR.SSSSQSRS.SSSRE..
Retrocopy LSKYNNDVSEEDDSNKKKSNRKSHSVPQSSHSLSSSCSFSLSSSTSRSRFPSR-SSSSQSRSCSSSREHL

Parental  RSRGSKSRSSSRSHRGS---SSPRKRSY-SSSSSSPERNRKRSRSRSSSSGDRKKR
          RS...KSRSSSRS.RGS.....PR...Y.......P...R....S.S.S....K..
Retrocopy RSSRLKSRSSSRSQRGSLNNPEPRANPY<QNTITLPKHHRSSGSSHSGSHSSSKNK

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	67.23 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	36.81 RPM
SRP007412_cerebellum	0.00 RPM	112.23 RPM
SRP007412_heart	0.00 RPM	25.62 RPM
SRP007412_kidney	0.00 RPM	25.23 RPM
SRP007412_liver	0.00 RPM	8.27 RPM
SRP007412_testis	0.00 RPM	41.65 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_2618 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_2618 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_2618 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pan troglodytes	retro_ptro_3251

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006356	2 retrocopies	retro_cjac_2350, retro_cjac_4199,
Macaca mulatta	ENSMMUG00000017312	2 retrocopies	retro_mmul_2602, retro_mmul_2618 ,
Monodelphis domestica	ENSMODG00000000504	2 retrocopies	retro_mdom_1975, retro_mdom_443,
Tupaia belangeri	ENSTBEG00000002316	3 retrocopies	retro_tbel_122, retro_tbel_3653, retro_tbel_4007,