RetrogeneDB ID:

retro_rnor_1489

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:2:44556763..44557047(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Plac8
Ensembl ID:ENSRNOG00000002217
Aliases:None
Description:placenta-specific gene 8 protein [Source:RefSeq peptide;Acc:NP_001101823]


Retrocopy-Parental alignment summary:






>retro_rnor_1489
ATCATGACTCAATCTGGATTTGTTCAAGTGTCCTGAAATTCCAGCTGGCAGGCAGCCCATGTGATTGCTTCAGTGACCGT
GGAGTCCGAATCTGTCGCACGTTTTGTTTTACGTGTCTTGGGTGTCAAGTGGCATCTCACGTGAATGAATGCTGTTGGTG
TGAAACAACTGTGGCAATGGGGACTGTCTAAAGACCCTGATATGGCAATCCTAGATCTGCTTGTGATGAATACACGGCCG
TCCACTGCTGTCCTGTTTGCTCTCTGTGCCAAGTCAAGCAGGAG

ORF - retro_rnor_1489 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.46 %
Parental protein coverage: 84.82 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalIVTQPGFVRAPQNSNWQT-SLCDCFSDCGVCLCGTFCFTCLGCQVAADMNECCLCGTTVAMRTLYRTRYG
I.TQ.GFV....NS.WQ..S.CDCFSD.GV..C.TFCFTCLGCQVA...NECC.C.TTVAM.T..R..YG
RetrocopyIMTQSGFVQVS*NSSWQA<SPCDCFSDRGVRICRTFCFTCLGCQVASHVNECCWCETTVAMGTV*RP*YG
ParentalIPGSICDDYMVTLFCPVCSVCQIKRD
.P.S.CD.Y.....CPVCS.CQ.K..
RetrocopyNPRSACDEYTAVHCCPVCSLCQVKQE

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 .00 RPM 0 .50 RPM
SRP017611_kidney 0 .00 RPM 17 .17 RPM
SRP017611_liver 0 .00 RPM 2 .56 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1489 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1489 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_1489 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Homo sapiens ENSG000001452871 retrocopy
Gorilla gorilla ENSGGOG000000074641 retrocopy
Monodelphis domestica ENSMODG000000193091 retrocopy
Mus musculus ENSMUSG000000293221 retrocopy
Otolemur garnettii ENSOGAG000000172321 retrocopy
Pan troglodytes ENSPTRG000000162261 retrocopy
Rattus norvegicus ENSRNOG00000002217 2 retrocopies
retro_rnor_1489 , retro_rnor_1878,



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