RetrogeneDB ID: retro_mmul_251

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214726946:2517..2874(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000000594
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000028920
• Aliases: None
• Description: None

Sequence

>retro_mmul_251
ATGGTGGCCCGGGTGTGGTCGCTGATGAGGTTCCTCATCAAGGGAAGTGTGGCTGGGGGTGCCGTCTACCTGGTGTACGA
CCAGGAGCTGCTGGGGCCCAGCGACAAGAGCCAGGCAGCCCTACAGAAGGCTGGGGAGGTGGTTCCCCCCGCCGTGTACC
AGTTCAGCCAGTACGTGTGTCAGCAGACGGGCCTGCAGATACCCCAGCTCCCAGCCCCTCCAAAGATTTACTTTCCCATC
CGTGACTCCTGGAATGCAGGCATCATGACGGTGATGTCAGCTCTGTCGGTGGCCCCCTCCAAGGCCCGCGAGTACTCCAA
GGAGGGCTGGGAGTATGTGAAGGCACGCACCAAGTAG

Alignment

ORF - retro_mmul_251 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100.0 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RFLIKGSVAGGAVYLVYDQELLGPSDKSQAALQKAGEVVPPAVYQFSQYVCQQTGLQIPQLPAPPKIYFP
          RFLIKGSVAGGAVYLVYDQELLGPSDKSQAALQKAGEVVPPAVYQFSQYVCQQTGLQIPQLPAPPKIYFP
Retrocopy RFLIKGSVAGGAVYLVYDQELLGPSDKSQAALQKAGEVVPPAVYQFSQYVCQQTGLQIPQLPAPPKIYFP

Parental  IRDSWNAGIMTVMSALSVAPSKAREYSKEGWEYVKARTK
          IRDSWNAGIMTVMSALSVAPSKAREYSKEGWEYVKARTK
Retrocopy IRDSWNAGIMTVMSALSVAPSKAREYSKEGWEYVKARTK

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	1.01 RPM	0.45 RPM
SRP007412_brain_prefrontal_cortex	4.13 RPM	10.79 RPM
SRP007412_cerebellum	0.32 RPM	0.65 RPM
SRP007412_heart	3.59 RPM	2.00 RPM
SRP007412_kidney	1.76 RPM	1.06 RPM
SRP007412_liver	3.21 RPM	6.18 RPM
SRP007412_testis	20.20 RPM	40.26 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_251 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_251 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_251 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018796	2 retrocopies	retro_cfam_1706, retro_cfam_756,
Callithrix jacchus	ENSCJAG00000017076	2 retrocopies	retro_cjac_2329, retro_cjac_735,
Felis catus	ENSFCAG00000011836	1 retrocopy	retro_fcat_287,
Loxodonta africana	ENSLAFG00000026050	1 retrocopy	retro_lafr_1241,
Macaca mulatta	ENSMMUG00000028920	1 retrocopy	retro_mmul_251 ,
Monodelphis domestica	ENSMODG00000001268	1 retrocopy	retro_mdom_1960,
Mustela putorius furo	ENSMPUG00000006136	2 retrocopies	retro_mputfur_1001, retro_mputfur_217,
Procavia capensis	ENSPCAG00000006583	1 retrocopy	retro_pcap_106,
Tupaia belangeri	ENSTBEG00000013386	1 retrocopy	retro_tbel_1443,