RetrogeneDB ID:

retro_ocun_276

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:1:22409275..22409745(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000007501
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ocun_276
ATGGCCCCCAAACGCCTGTCTTGGCTCCTTCCTCAAATGAAGACGCCGAGAGCAGCTCCTGGCCCGAGACCGGCGGACAC
ATCGGCCTCTCGGGGGTTGTTGACAGGAGAAAAAGAACAAGAAGCAATTGAACATATGGATGAAGTACAAAATGAAACAG
ACAGACTTAATGAACAAGTCAGTGAGGAGAATTTGAAAGTAGAACAGAAATATAACAAACTCCTCCAACCATTTTTTCAG
AAGAGGTCAGAAACGATCGCCAAAATCCCAAACTTTGGGTAACAACATTAGTCAACCATCCGCAAGTGTCTGCCCTGCTT
GGAGAGGAGGATGAAGAGGCGCTGCATTATCTGACCCGAGTGGAAGTGACAGAATTTGAGGATATTAAATCAGGTTACAG
AATAGATTTTTATTTTCATGAAAATCCTTACTTTGAAAATAAAGTTCTCTCCAAAGAACTTTAATTATCT

ORF - retro_ocun_276 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.96 %
Parental protein coverage: 64.26 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAPKRPSLLLPHAKKPRAAPGPRPADTSASRGLLTCEKEQQEAIEHIDEVQNEIDRLNEQASEEILKVEQ
MAPKR.S.LLP..K.PRAAPGPRPADTSASRGLLT.EKEQ.EAIEH.DEVQNE.DRLNEQ.SEE.LKVEQ
RetrocopyMAPKRLSWLLPQMKTPRAAPGPRPADTSASRGLLTGEKEQ-EAIEHMDEVQNETDRLNEQVSEENLKVEQ
ParentalKYNKLRQPFFQKRSELIAKIPNF-WVTTFVNHPQGLVSALLGEEDEEALHYLTRVEVTEFEDIKSGYRID
KYNKL.QPFFQKRSE.IAKIPNF.WVTT.VNHPQ..VSALLGEEDEEALHYLTRVEVTEFEDIKSGYRID
RetrocopyKYNKLLQPFFQKRSETIAKIPNF<WVTTLVNHPQ--VSALLGEEDEEALHYLTRVEVTEFEDIKSGYRID
ParentalFYFDENPYFENKVLSKEFHLN
FYF.ENPYFENKVLSKE..L.
RetrocopyFYFHENPYFENKVLSKEL*LS

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 56 .62 RPM
SRP017611_kidney 0 .00 RPM 50 .78 RPM
SRP017611_liver 0 .00 RPM 22 .04 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_276 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_276 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_276 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 183 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000156867 retrocopies
Bos taurus ENSBTAG000000209598 retrocopies
Canis familiaris ENSCAFG000000327282 retrocopies
Dasypus novemcinctus ENSDNOG000000028023 retrocopies
Equus caballus ENSECAG000000091174 retrocopies
Echinops telfairi ENSETEG0000001674615 retrocopies
Felis catus ENSFCAG000000058482 retrocopies
Homo sapiens ENSG0000011933514 retrocopies
Microcebus murinus ENSMICG000000176432 retrocopies
Myotis lucifugus ENSMLUG0000001429113 retrocopies
Macaca mulatta ENSMMUG0000000853211 retrocopies
Mustela putorius furoENSMPUG0000001306910 retrocopies
Mus musculus ENSMUSG0000005476617 retrocopies
Nomascus leucogenys ENSNLEG000000175952 retrocopies
Oryctolagus cuniculus ENSOCUG00000007501 12 retrocopies
Otolemur garnettii ENSOGAG0000000763513 retrocopies
Pongo abelii ENSPPYG0000001965917 retrocopies
Pan troglodytes ENSPTRG0000002143616 retrocopies
Pteropus vampyrus ENSPVAG000000034372 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000105466 retrocopies
Tursiops truncatus ENSTTRG000000116057 retrocopies



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