RetrogeneDB ID:

retro_ocun_1

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:2:54577246..54577615(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOCUG00000023661
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000014962
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ocun_1
ATGGCGCCGCAAAAAGACAAAAAGCCCAAGAAGTCAACCTGGAAGTTTAATTTGGACTTTACTCATCCTATTGAAGATGG
AATTTTTGATTCAGGAAATTTTGAGCAGTTTCTCCGGGAAAAGGTTAAAGTCAATGGGAAAACTGGAAATCTCGGGAATG
TTGTTCACATTGAATGCTTCAAGAATAAAATCACGGTTGTTTCTGAGAAACAGTTCTCTAAAAGGTATTTGAAATACCTT
ACCAAGAAGTACCTTAAGAAGAACAATCTTCGTGATTGGCTTCGTGTGGTTGCGTCTGACAAGGAGACTTACGAACTTCG
CTACTTCCAGATTAGTCAAGATGAAGATGGATCAGAGTCTGAGGATTAG

ORF - retro_ocun_1 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.36 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAPQKDKKPKKSTWKFNLDFTHPMEDGIFDSGNFEQFLREKVKVNGKTGNLGNVVHIERFKNKITVVSEK
MAPQKDKKPKKSTWKFNLDFTHP.EDGIFDSGNFEQFLREKVKVNGKTGNLGNVVHIE.FKNKITVVSEK
RetrocopyMAPQKDKKPKKSTWKFNLDFTHPIEDGIFDSGNFEQFLREKVKVNGKTGNLGNVVHIECFKNKITVVSEK
ParentalQFSKRYLKYLTKKYLKKNNLRDWLRVVASDKETYELRYFQISQDEDGSESED
QFSKRYLKYLTKKYLKKNNLRDWLRVVASDKETYELRYFQISQDEDGSESED
RetrocopyQFSKRYLKYLTKKYLKKNNLRDWLRVVASDKETYELRYFQISQDEDGSESED

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 .94 RPM 7 .56 RPM
SRP017611_kidney 1 .52 RPM 18 .85 RPM
SRP017611_liver 0 .15 RPM 2 .39 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_1 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 27 parental genes, and 81 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000047301 retrocopy
Canis familiaris ENSCAFG000000149552 retrocopies
Callithrix jacchus ENSCJAG000000024271 retrocopy
Cavia porcellus ENSCPOG000000092151 retrocopy
Equus caballus ENSECAG000000188941 retrocopy
Erinaceus europaeus ENSEEUG000000119415 retrocopies
Echinops telfairi ENSETEG000000106589 retrocopies
Homo sapiens ENSG000001635841 retrocopy
Gorilla gorilla ENSGGOG000000017341 retrocopy
Gadus morhua ENSGMOG000000040771 retrocopy
Loxodonta africana ENSLAFG000000132202 retrocopies
Macropus eugenii ENSMEUG000000094841 retrocopy
Myotis lucifugus ENSMLUG000000230522 retrocopies
Myotis lucifugus ENSMLUG000000276838 retrocopies
Macaca mulatta ENSMMUG000000228812 retrocopies
Mus musculus ENSMUSG000000392214 retrocopies
Nomascus leucogenys ENSNLEG000000052872 retrocopies
Oryctolagus cuniculus ENSOCUG00000014962 2 retrocopies
retro_ocun_1 , retro_ocun_256,
Otolemur garnettii ENSOGAG000000126422 retrocopies
Procavia capensis ENSPCAG000000087041 retrocopy
Pongo abelii ENSPPYG000000259001 retrocopy
Pteropus vampyrus ENSPVAG000000115241 retrocopy
Rattus norvegicus ENSRNOG000000118172 retrocopies
Sus scrofa ENSSSCG000000274415 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000229723 retrocopies
Tupaia belangeri ENSTBEG0000000035717 retrocopies
Tursiops truncatus ENSTTRG000000070353 retrocopies



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