RetrogeneDB ID:

retro_mmul_5

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:6:62939246..62939738(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000030052
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:PPIA
Ensembl ID:ENSMMUG00000016638
Aliases:PPIA, CYPA
Description:Peptidyl-prolyl cis-trans isomerase A [Source:UniProtKB/Swiss-Prot;Acc:P62940]


Retrocopy-Parental alignment summary:






>retro_mmul_5
ATGGTCAACCCTACCGTGTTCTTCGACATTGCTGTCGACGGCGAGCCCTTGGGCTGCGTCTCCTTCGAGCTGTTTGCAGA
CAAGGTTCCAAAGACAGCAGAAAATTTTCGTGCTCTGAGCACTGGAGAGAAAGGGTTTGGTTATAAGGGTTCCTGCTTTC
ACAGAATTATTCCAGGGTTTATGTGTCAGGGTGGTGACTTCACACGCCGTAATGGCACTGGTGGCAAGTCCATCTATGGG
GAGAAATTTGAAGATGAGAACTTCATCCTAAAGCATACAGGTCCTGGCATCTTGTCCATGGCAAATGCTGGACCCAAGAC
AAATGGTTCCCAGTTTTTCATCTGCACTGCCAAGACTGAGTGGTTGGATGGCAAGCATGTGGTCTTTGGCAAAGTGAAAG
AAGGCATGAATATTGTGGAGGCCATGGAGCGCTTTGGGTCCAGGAATGGCAAGACCAGCAAGAAGATCACCATTGCTGAC
TGTGGACAACTC

ORF - retro_mmul_5 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.17 %
Parental protein coverage: 99.39 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMVNPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRH
MVNPTVFFDIAVDGEPLG.VSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTR.
RetrocopyMVNPTVFFDIAVDGEPLGCVSFELFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRR
ParentalNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVE
NGTGGKSIYGEKFEDENFILKHTGPGILSMANAGP.TNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVE
RetrocopyNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPKTNGSQFFICTAKTEWLDGKHVVFGKVKEGMNIVE
ParentalAMERFGSRNGKTSKKITIADCGQL
AMERFGSRNGKTSKKITIADCGQL
RetrocopyAMERFGSRNGKTSKKITIADCGQL

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 .11 RPM 61 .29 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 179 .37 RPM
SRP007412_cerebellum 0 .13 RPM 47 .33 RPM
SRP007412_heart 0 .18 RPM 26 .03 RPM
SRP007412_kidney 0 .00 RPM 38 .03 RPM
SRP007412_liver 0 .04 RPM 49 .95 RPM
SRP007412_testis 0 .26 RPM 92 .58 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_5 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_5 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_5 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 464 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG0000001200312 retrocopies
Callithrix jacchus ENSCJAG0000001196954 retrocopies
Cavia porcellus ENSCPOG0000000263211 retrocopies
Echinops telfairi ENSETEG0000000218621 retrocopies
Homo sapiens ENSG0000019626278 retrocopies
Gorilla gorilla ENSGGOG000000262984 retrocopies
Loxodonta africana ENSLAFG000000113451 retrocopy
Macropus eugenii ENSMEUG0000000201620 retrocopies
Macaca mulatta ENSMMUG00000016638 10 retrocopies
Monodelphis domestica ENSMODG000000160899 retrocopies
Mus musculus ENSMUSG000000718662 retrocopies
Oryctolagus cuniculus ENSOCUG000000166623 retrocopies
Otolemur garnettii ENSOGAG0000002799731 retrocopies
Pongo abelii ENSPPYG0000001758612 retrocopies
Pongo abelii ENSPPYG000000175874 retrocopies
Pan troglodytes ENSPTRG0000002306477 retrocopies
Rattus norvegicus ENSRNOG000000064232 retrocopies
Sarcophilus harrisii ENSSHAG000000170623 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001021510 retrocopies
Tupaia belangeri ENSTBEG0000001748477 retrocopies
Tarsius syrichta ENSTSYG0000000897323 retrocopies



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