RetrogeneDB ID:

retro_mmul_1227

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:16:32938442..32938668(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:COX6B1
Ensembl ID:ENSMMUG00000016765
Aliases:COX6B1, COX6B
Description:Cytochrome c oxidase subunit 6B1 [Source:UniProtKB/Swiss-Prot;Acc:Q53CG4]


Retrocopy-Parental alignment summary:






>retro_mmul_1227
TACAAGACTGCTCCCTTTGACAGCAGCTTCCCCAACCAGAACCAGCCCAGGAACTGCTTGCAGGACTACCTGGACTTCCA
CCTCTGTGAGAAGGCAATGATTGCTAAAAGGGACAATGTCTGTGTGTGTGAATAGTACCAGCCTGTGTACAAGTCCCTCA
TTCCCATATCCTGAGTCTCAGCCTGGGACGAACACTGGGCAGAAGGCACATTTTCCTGGGAAGATC

ORF - retro_mmul_1227 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.05 %
Parental protein coverage: 86.21 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTTKGGNVSVCEWYQRVYQSLCPTSWVTDWDEQRAEGT
YKTAPFDS.FPNQNQ.RNC.Q.YLDFH.C.KAM..K..NV.VCE.YQ.VY.SL.P.S.V..WDE..AEGT
RetrocopyYKTAPFDSSFPNQNQPRNCLQDYLDFHLCEKAMIAKRDNVCVCE*YQPVYKSLIPIS*VSAWDEHWAEGT
Parental-FPGKI
.FPGKI
Retrocopy>FPGKI

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 57 .71 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 112 .09 RPM
SRP007412_cerebellum 0 .00 RPM 53 .86 RPM
SRP007412_heart 0 .00 RPM 136 .67 RPM
SRP007412_kidney 0 .00 RPM 115 .14 RPM
SRP007412_liver 0 .00 RPM 121 .25 RPM
SRP007412_testis 0 .00 RPM 14 .44 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1227 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1227 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1227 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1762
Pan troglodytes retro_ptro_1209

Parental genes homology:
Parental genes homology involve 23 parental genes, and 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000005633 retrocopies
Canis familiaris ENSCAFG000000069137 retrocopies
Callithrix jacchus ENSCJAG000000102115 retrocopies
Equus caballus ENSECAG000000123173 retrocopies
Felis catus ENSFCAG000000063785 retrocopies
Homo sapiens ENSG000001262675 retrocopies
Microcebus murinus ENSMICG000000099025 retrocopies
Myotis lucifugus ENSMLUG000000113654 retrocopies
Macaca mulatta ENSMMUG00000016765 5 retrocopies
Monodelphis domestica ENSMODG000000139621 retrocopy
Mustela putorius furoENSMPUG000000062581 retrocopy
Mus musculus ENSMUSG000000367511 retrocopy
Nomascus leucogenys ENSNLEG000000112835 retrocopies
Oryctolagus cuniculus ENSOCUG000000096062 retrocopies
Otolemur garnettii ENSOGAG000000041484 retrocopies
Oryzias latipes ENSORLG000000060701 retrocopy
Pan troglodytes ENSPTRG000000108544 retrocopies
Pteropus vampyrus ENSPVAG000000128218 retrocopies
Rattus norvegicus ENSRNOG000000243091 retrocopy
Sorex araneus ENSSARG000000107711 retrocopy
Sus scrofa ENSSSCG000000029072 retrocopies
Tarsius syrichta ENSTSYG000000145638 retrocopies
Tursiops truncatus ENSTTRG000000022412 retrocopies



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