RetrogeneDB ID:

retro_ocun_237

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:2:137972399..137972894(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOCUG00000012631
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000016662
Aliases:None
Description:Peptidyl-prolyl cis-trans isomerase [Source:UniProtKB/TrEMBL;Acc:G1TC44]


Retrocopy-Parental alignment summary:






>retro_ocun_237
ATGGTCAACCCCACTGTGTTCTTTGACATCGCCGTCGACGGCGAGCCTTTGGGCCGCGTCTCCTTCGAGCTATTTGCAGA
CAAAGTTCCAAAGACAGCAGAAAACTTCCATGCTCTGAGCACCAGAGAGAAAGGATTCGGTTATAAGGGTTCCTGCTTTC
ACAGGATTATTCCAGGATTTATGTGCCAAGGTGGTGACTTCACACGCCACAATGGCACCGGCGGCAAGTCCATCTATGGA
GAGAAGTTCGAGGATGAAAACTTCCTGCTGAAGCACACAGGTCCTGGCATCTTGTCCATGGCAAATGCTGGGCCCAACAC
AAACGGCTCCCAGTTCTTCATCTGCACTGTCAAGACTGAATGGTTGGATGGCAAGCATGTGGTCTTTGGCAGAGTGAAAG
AGGGCATGGGCATGGTGGAAGCCATGGAACACTTTGGGTCCGAGAATGGCAAGACCAGCAAGAAGATCACCATTGCCAAC
TGTGGACAACTCTAA

ORF - retro_ocun_237 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.29 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMVNPTVFFDIAVDGEPLSFFLLQLFADKVPKTAENFRALSTGEKGFGYKGSCFHRIIPGFMCQGGDFTRH
MVNPTVFFDIAVDGEPL......LFADKVPKTAENF.ALST.EKGFGYKGSCFHRIIPGFMCQGGDFTRH
RetrocopyMVNPTVFFDIAVDGEPLGRVSFELFADKVPKTAENFHALSTREKGFGYKGSCFHRIIPGFMCQGGDFTRH
ParentalNGTGGKSIYGEKFEDENFLLKHTGPGILSMANAGPNTNGSQFFICTAKTEWLDGKHVVFGRVKEGMSIVE
NGTGGKSIYGEKFEDENFLLKHTGPGILSMANAGPNTNGSQFFICT.KTEWLDGKHVVFGRVKEGM..VE
RetrocopyNGTGGKSIYGEKFEDENFLLKHTGPGILSMANAGPNTNGSQFFICTVKTEWLDGKHVVFGRVKEGMGMVE
ParentalAMEHFGSENGKTSKKITIANCGQL
AMEHFGSENGKTSKKITIANCGQL
RetrocopyAMEHFGSENGKTSKKITIANCGQL

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 31 .51 RPM 600 .50 RPM
SRP017611_kidney 38 .21 RPM 696 .52 RPM
SRP017611_liver 8 .48 RPM 142 .51 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_237 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_237 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_237 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 ENSOCUG00000016662 3 retrocopies
retro_ocun_113, retro_ocun_1406, retro_ocun_237 ,
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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