RetrogeneDB ID:

retro_ocun_1433

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:8:101472198..101472621(+)
Located in intron of:ENSOCUG00000013720
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000012485
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ocun_1433
CCTGGGAAAAGGGCTCACTATTCACCTGCCCCAGAAAACCCCCCAAAGTCATGCCAGTCAAGAGGTAAAAATATTTGTGT
TCACCTTAAGAACACCCGAGAAACTGCCCAGGCCATCAAGAGTGTGCATATCCAAACAGCAACCCCGTATCTGGAAGATG
TCCCATTTAAAGAAGCTGTGTGGCCATTCCATCATCCTCCTGGTGGTGGAGTTGATAGGTGTGCCCGAACCAGACAGTGG
GGCTGGACATAGGGTCAGTGGCCCAAAGGGAGTGCTAAATTTTTGTTGCACATGGTGAAAAATGCACACAGATGCCGACC
TAAGCATCTGGATGTTGATTCTGTGGTCATGGAACACACCCAGGTGAACGAAGCCCTCATGATGTACCACCCTGACTACA
GAGCTCAGGGCCAGCTGCCCCCA

ORF - retro_ocun_1433 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.45 %
Parental protein coverage: 75.4 %
Number of stop codons detected: 1
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalPAKMVRYSLDPENPTKSCKSRGSNLRVHFKNTRETAQAIKGMHIRKATKYLKDVTLKKQCVPFRR-YNGG
P.K...YS..PENP.KSC.SRG.N..VH.KNTRETAQAIK..HI..AT.YL.DV..K....PF.....GG
RetrocopyPGKRAHYSPAPENPPKSCQSRGKNICVHLKNTRETAQAIKSVHIQTATPYLEDVPFKEAVWPFHHPPGGG
ParentalVGRCAQAKQWGWTQGRWPKKSAEFLLHMLKNAESNAELKGLDVDSLVIEHIQVNKAPKMRRRTYRAHGRI
V.RCA...QWGWT.G.WPK.SA.FLLHM.KNA......K.LDVDS.V.EH.QVN.A..M....YRA.G..
RetrocopyVDRCARTRQWGWT*GQWPKGSAKFLLHMVKNAH-RCRPKHLDVDSVVMEHTQVNEALMMYHPDYRAQGQL
ParentalNP
.P
RetrocopyPP

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 .06 RPM 108 .89 RPM
SRP017611_kidney 0 .00 RPM 230 .28 RPM
SRP017611_liver 0 .00 RPM 48 .56 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_1433 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_1433 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_1433 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 23 parental genes, and 550 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000229025 retrocopies
Choloepus hoffmanni ENSCHOG0000000787250 retrocopies
Cavia porcellus ENSCPOG0000001933731 retrocopies
Equus caballus ENSECAG000000115479 retrocopies
Echinops telfairi ENSETEG0000001132210 retrocopies
Homo sapiens ENSG000002154721 retrocopy
Latimeria chalumnae ENSLACG000000088351 retrocopy
Macropus eugenii ENSMEUG0000001670926 retrocopies
Microcebus murinus ENSMICG0000001710214 retrocopies
Myotis lucifugus ENSMLUG0000002555422 retrocopies
Myotis lucifugus ENSMLUG0000002926436 retrocopies
Macaca mulatta ENSMMUG0000001883726 retrocopies
Monodelphis domestica ENSMODG0000000353411 retrocopies
Mus musculus ENSMUSG0000006232880 retrocopies
Oryctolagus cuniculus ENSOCUG00000012485 2 retrocopies
retro_ocun_1433 , retro_ocun_231,
Procavia capensis ENSPCAG000000031038 retrocopies
Pongo abelii ENSPPYG0000000915143 retrocopies
Pteropus vampyrus ENSPVAG0000000196976 retrocopies
Sarcophilus harrisii ENSSHAG0000000306014 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000000519333 retrocopies
Tarsius syrichta ENSTSYG0000000740220 retrocopies
Tursiops truncatus ENSTTRG0000000579731 retrocopies
Vicugna pacos ENSVPAG000000095681 retrocopy



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