RetrogeneDB ID:

retro_rnor_2282

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:6:38819299..38819739(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Ube2v1
Ensembl ID:ENSRNOG00000025580
Aliases:None
Description:ubiquitin-conjugating enzyme E2 variant 1 [Source:RefSeq peptide;Acc:NP_001103815]


Retrocopy-Parental alignment summary:






>retro_rnor_2282
ATGGCAGCCACCACAGGCTCGGGAGTAAAGTCCTTCGAAATTTCCGACTGTTGGAAGAGCTGGAAGAAGGCCAGAAAGGA
GTAGGTGACAGCACAGTTAGCTAGGGTCTGGAGGAGGATGAAGACATGACACTCACAAGATGGATAGGCATGTTAATTGG
GCCTCCACAAACAATTTATTAAAACCGAACATACCGCCTTAAGATAGAGCGTGTGCCTAAGTATCGAGAAGCATCCCAGT
CTGTGAGATTTGTAACAAGAGTCAATATGAACGGCTTGAGCAGTTCCAATGGAGTGGTGGATCCACGAGCCATGGCAGTG
CTGGAAAAGTGGCAGAATTCCCACAGCATCAAAGTCATCCTGCAGGAACTGAGGCACTTGATGATTTCAAAAGAGAACAT
GAAGCTGCCACAGCCACCAGAAGAACTGTGTTACAGCAAT

ORF - retro_rnor_2282 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.78 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAATTGSGVK-VPRNFRLLEELEEGQKGVGDGTVSWGLEDDEDMTLTRWTGMIIGPPRTIYENRIYSLKI
MAATTGSGVK.V.RNFRLLEELEEGQKGVGD.TVS.GLE.DEDMTLTRW.GM.IGPP.TIY.NR.Y.LKI
RetrocopyMAATTGSGVK<VLRNFRLLEELEEGQKGVGDSTVS*GLEEDEDMTLTRWIGMLIGPPQTIY*NRTYRLKI
ParentalECGPKYPEAPPSVRFVTRVNMSGVSSSNGVVDPRATAVLAKWQNSHSIKVILQELRRLMMSKENMKLPQP
E..PKY.EA..SVRFVTRVNM.G.SSSNGVVDPRA.AVL.KWQNSHSIKVILQELR.LM.SKENMKLPQP
RetrocopyERVPKYREASQSVRFVTRVNMNGLSSSNGVVDPRAMAVLEKWQNSHSIKVILQELRHLMISKENMKLPQP
ParentalPEGQCYSN
PE..CYSN
RetrocopyPEELCYSN

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 17 .83 RPM
SRP017611_kidney 0 .00 RPM 10 .19 RPM
SRP017611_liver 0 .00 RPM 6 .99 RPM
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2282 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2282 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_2282 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 17 parental genes, and 95 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000273164 retrocopies
Canis familiaris ENSCAFG000000322448 retrocopies
Callithrix jacchus ENSCJAG0000003698410 retrocopies
Equus caballus ENSECAG000000118583 retrocopies
Homo sapiens ENSG000002446874 retrocopies
Loxodonta africana ENSLAFG000000273592 retrocopies
Macaca mulatta ENSMMUG000000122286 retrocopies
Mustela putorius furoENSMPUG000000175573 retrocopies
Nomascus leucogenys ENSNLEG000000069878 retrocopies
Oryctolagus cuniculus ENSOCUG000000261724 retrocopies
Otolemur garnettii ENSOGAG0000002589412 retrocopies
Pan troglodytes ENSPTRG000000136151 retrocopy
Rattus norvegicus ENSRNOG000000018291 retrocopy
Rattus norvegicus ENSRNOG00000025580 21 retrocopies
Sus scrofa ENSSSCG000000306321 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000143226 retrocopies
Tarsius syrichta ENSTSYG000000025111 retrocopy



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