RetrogeneDB ID:

retro_rnor_387

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:15:85116185..85116680(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSRNOG00000022492
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:Ppia
Ensembl ID:ENSRNOG00000006423
Aliases:Ppia, CYCA, CyP-A
Description:Peptidyl-prolyl cis-trans isomerase A [Source:UniProtKB/Swiss-Prot;Acc:P10111]


Retrocopy-Parental alignment summary:






>retro_rnor_387
ATGGTCAACCTCACCATGTTCTTCAACATCACTGCTGATGGCGAGCCCTTGGGCCGCGTCTCCTTGGAGTTGTTTGCAGA
CAAAGTACCAAGGACAGCAGAAAACTTTCGTTCTCTGACCACTGGAGAGAAAGGATTTGGCTATAAGGGTTCCTCCTTTC
ACAGAATTATTCCAGGATTCATGTGCCAGGGTGGTAAGGTCACCTGCCATAATGGCACTGGTGGCAAGTCCATCTACGGA
GAGAAATTTGAGAATGATAGCTTCATCCTGAAGCATACAGGTCCTGGGATCTTGTCCATGGCAAATGCTGGACCAAACAC
AAATGGTTCCCAGTTTTTTATCTGCACTGCCAAGACTGAGCGGCTGGATGGTAAGTGTGTGGTCTTTGGGAAGGGGAGAG
GAGGCACGAACATTGTGGAAGCCATGGAGCATTTTGGGTCCAGGAATGGCAAGACCAGCAAGAAGATCACCATTTCCGAC
TGTGGACAACTCTTA

ORF - retro_rnor_387 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.59 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMVNPTVFFDITADGEPLGRVCFELFADKVPKTAENFRALSTGEKGFGYKGSSFHRIIPGFMCQGGDFTRH
MVN.T.FF.ITADGEPLGRV..ELFADKVP.TAENFR.L.TGEKGFGYKGSSFHRIIPGFMCQGG..T.H
RetrocopyMVNLTMFFNITADGEPLGRVSLELFADKVPRTAENFRSLTTGEKGFGYKGSSFHRIIPGFMCQGGKVTCH
ParentalNGTGGKSIYGEKFEDENFILKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGKVKEGMSIVE
NGTGGKSIYGEKFE...FILKHTGPGILSMANAGPNTNGSQFFICTAKTE.LDGK.VVFGK...G..IVE
RetrocopyNGTGGKSIYGEKFENDSFILKHTGPGILSMANAGPNTNGSQFFICTAKTERLDGKCVVFGKGRGGTNIVE
ParentalAMERFGSRNGKTSKKITISDCGQL
AME.FGSRNGKTSKKITISDCGQL
RetrocopyAMEHFGSRNGKTSKKITISDCGQL

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
SRP017611_brain 0 .22 RPM 206 .85 RPM
SRP017611_kidney 0 .00 RPM 182 .06 RPM
SRP017611_liver 0 .07 RPM 90 .17 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_387 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_387 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_387 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 ENSMMUG0000001663810 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 ENSRNOG00000006423 2 retrocopies
retro_rnor_360, retro_rnor_387 ,
Sarcophilus harrisii ENSSHAG000000170623 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001021510 retrocopies
Tupaia belangeri ENSTBEG0000001748477 retrocopies
Tarsius syrichta ENSTSYG0000000897323 retrocopies



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