RetrogeneDB ID: retro_mmul_741

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214780010:674..1126(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NTPCR
• Ensembl ID: ENSMMUG00000012614
• Aliases: None
• Description: nucleoside-triphosphatase, cancer-related [Source:RefSeq peptide;Acc:NP_001253961]

Sequence

>retro_mmul_741
TTTTATAGAGAGGAAGTCAGACAGGGAAGAAGAAGAATAGGATTTGATGTCATCATGTTGTCCGGCATCCACGGGCCTTT
ATTCAGAGTTGGGTTAGAGCCTCCATCTGGAAAATGTGGATGCTAAGTTGGGCATTATGTGGTTAACCTGACTTATTTTG
AGCAGTTGGCGCTCCCGTCTTGAGGAATGCAGATTCCAGCAGTGGCCCAGGGCAAAGAGTGTACGTCATTGATGAGAGCA
GGAAAATGAAACTGTTTAGTCAGACTTTCATGCCAGCTGTTTGTGAGATGCTATCTACCCCAGGGACTATAATCGCTGGC
ACAATCCTAGTCCCTAAAGGAAAGCCACTGGCCCTTGTAGAAGAAATCAGAAACAGAAATGACGTGAAGGTGTTTAATGT
CTCTAAGGAAGACAAAAACCACCTTCTGCCAGATATTGTGATGTGTGTGCAG

Alignment

ORF - retro_mmul_741 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.63 %
• Parental protein coverage: 79.47 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FYTEEVRQGGRRIGFDVVTLSGTRGPLSRVGLEPPPGKRECRVGQYVVDMTSFEQLALP-VLRNADCSSG
          FY.EEVRQG.RRIGFDV..LSG..GPL.RVGLEPP.GK..C.VG.YVV..T.FEQLALP.VLRNAD.SSG
Retrocopy FYREEVRQGRRRIGFDVIMLSGIHGPLFRVGLEPPSGKCGC*VGHYVVNLTYFEQLALP<VLRNADSSSG

Parental  PGQRVCVIDEIGKMELFSQPFIQAVRQTLSTPGTIILGTIPVPKGKPLALVEEIRNRKDVKVFNVTKENR
          PGQRV.VIDE..KM.LFSQ.F..AV...LSTPGTII.GTI.VPKGKPLALVEEIRNR.DVKVFNV.KE..
Retrocopy PGQRVYVIDESRKMKLFSQTFMPAVCEMLSTPGTIIAGTILVPKGKPLALVEEIRNRNDVKVFNVSKEDK

Parental  NHLLPDIVTCVQ
          NHLLPDIV.CVQ
Retrocopy NHLLPDIVMCVQ

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	11.21 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	15.15 RPM
SRP007412_cerebellum	0.00 RPM	9.82 RPM
SRP007412_heart	0.00 RPM	15.84 RPM
SRP007412_kidney	0.00 RPM	13.61 RPM
SRP007412_liver	0.00 RPM	10.81 RPM
SRP007412_testis	0.00 RPM	11.61 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_741 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_741 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_741 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018274	1 retrocopy	retro_cjac_1773,
Felis catus	ENSFCAG00000014211	1 retrocopy	retro_fcat_708,
Homo sapiens	ENSG00000135778	1 retrocopy	retro_hsap_3246,
Gorilla gorilla	ENSGGOG00000015198	1 retrocopy	retro_ggor_2209,
Macaca mulatta	ENSMMUG00000012614	1 retrocopy	retro_mmul_741 ,
Pongo abelii	ENSPPYG00000000108	1 retrocopy	retro_pabe_2691,
Pan troglodytes	ENSPTRG00000002116	1 retrocopy	retro_ptro_2194,