RetrogeneDB ID: retro_mmul_824

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 11:82578830..82579109(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000006963
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MMU.366
• Ensembl ID: ENSMMUG00000000973
• Aliases: None
• Description: p53 and DNA damage-regulated protein 1 [Source:RefSeq peptide;Acc:NP_001252911]

Sequence

>retro_mmul_824
ATGCTGTCACCTGATGCAGAGCAAATTCTGTGGTACCAGTTCAAGGTGGAGGAGCTTGTGGAGGAGGTGCTGGTGGACAA
GCAGCAGGTTGTGGATGTGGACACCAAAAGGAATAAAAACCCAGAGGGCCTGAGAGCCCTGCAGAATGGTCTCAGCCTCT
CTGAAGATGTGGCTTGCTTCAGGAACATGTTTGTCAAGATGCCTCATCCTCAGGTGAAGGAAATGATTAAGAAAAATCAG
GATCATCTGGATAAAGATATAGAAATAATCCAAAAACAA

Alignment

ORF - retro_mmul_824 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.21 %
• Parental protein coverage: 70.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLSPEAERVLRYLVEVEELAEEVLADKRQIVDLDTKRNQNREGLRALQKDLSLSEDVMVCFGNMFIKMPH
          MLSP.AE..L.Y...VEEL.EEVL.DK.Q.VD.DTKRN.N.EGLRALQ..LSLSEDV..CF.NMF.KMPH
Retrocopy MLSPDAEQILWYQFKVEELVEEVLVDKQQVVDVDTKRNKNPEGLRALQNGLSLSEDV-ACFRNMFVKMPH

Parental  PETKEMIEKDQDHLDKEIEKLRKQ
          P..KEMI.K.QDHLDK.IE...KQ
Retrocopy PQVKEMIKKNQDHLDKDIEIIQKQ

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	13.78 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	26.02 RPM
SRP007412_cerebellum	0.00 RPM	21.50 RPM
SRP007412_heart	0.00 RPM	18.08 RPM
SRP007412_kidney	0.00 RPM	21.13 RPM
SRP007412_liver	0.00 RPM	12.27 RPM
SRP007412_testis	0.00 RPM	46.85 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_824 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_824 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_824 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1037
Pan troglodytes	retro_ptro_707
Gorilla gorilla	retro_ggor_818
Pongo abelii	retro_pabe_869

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020766	1 retrocopy	retro_cjac_3320,
Homo sapiens	ENSG00000088356	1 retrocopy	retro_hsap_1037,
Gorilla gorilla	ENSGGOG00000024924	1 retrocopy	retro_ggor_818,
Macropus eugenii	ENSMEUG00000003915	1 retrocopy	retro_meug_1967,
Myotis lucifugus	ENSMLUG00000007377	1 retrocopy	retro_mluc_348,
Macaca mulatta	ENSMMUG00000000973	1 retrocopy	retro_mmul_824 ,
Nomascus leucogenys	ENSNLEG00000009712	1 retrocopy	retro_nleu_910,
Oryctolagus cuniculus	ENSOCUG00000016709	1 retrocopy	retro_ocun_1047,
Ochotona princeps	ENSOPRG00000006403	1 retrocopy	retro_opri_630,
Pongo abelii	ENSPPYG00000010897	1 retrocopy	retro_pabe_869,
Pan troglodytes	ENSPTRG00000013368	1 retrocopy	retro_ptro_707,