RetrogeneDB ID:

retro_ocun_119

Retrocopy
location
Organism:Rabbit (Oryctolagus cuniculus)
Coordinates:X:86635609..86636152(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOCUG00000005663
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOCUG00000029741
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ocun_119
ATGAACACACTGCTGTCGCGGGCAAACTCGCTGTTTGCCTTCTCGCTGAGCGTGATGGCGGCAGTCACCCTGGGCTGCTT
CGTCACCACCGCATTCAAAGACAGGTGCGTGCCGGTGCAGCTGCAGGTCTCCCGGATCATGCTAAAAAATGTAGAAGACT
TCACTGGACCCAGACAAAGAAGCGACCTGGGATTCATCACATTTCATATAACTGCTGATCTGGAGAAGACGTTTGACTGG
AATGTTAAGCAGTTGTTTCTTTATTTATCAGCAGAATATTCAACAAAAAATAATGCTGTGAACCAGGTGGTCCTCTGGGA
CAAGATTGTTCTGAGAGGTGACAATCCGAAGCTGAGGGTGAAAGATGTGAAAGCGAAGTATTTTTTCTTTGATGATGGAA
ATGGTCTCAAGGGAAACCGGAATGTCACTTTGACCCTATCTTGGAATGTTGTACCAATTGCTGGAATTCTACCTCTTGTG
ACAGGATCAGGACATGTGTCTGTCCCATTTCCAGATGCATATGAAATAATGAAGAGTTACTAA

ORF - retro_ocun_119 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.44 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMNTVLSRANSLFAFSLSVMAALTFGCFITTAFKDRSVPVRLHVSRIMLKNVEDFTGPRERSDLGFITFDI
MNT.LSRANSLFAFSLSVMAA.T.GCF.TTAFKDR.VPV.L.VSRIMLKNVEDFTGPR.RSDLGFITF.I
RetrocopyMNTLLSRANSLFAFSLSVMAAVTLGCFVTTAFKDRCVPVQLQVSRIMLKNVEDFTGPRQRSDLGFITFHI
ParentalTADLENIFDWNVKQLFLYLSAEYSTKNNALNQVVLWDKIVLRGDNPKLLLKDMKTKYFFFDDGNGLKGNR
TADLE..FDWNVKQLFLYLSAEYSTKNNA.NQVVLWDKIVLRGDNPKL..KD.K.KYFFFDDGNGLKGNR
RetrocopyTADLEKTFDWNVKQLFLYLSAEYSTKNNAVNQVVLWDKIVLRGDNPKLRVKDVKAKYFFFDDGNGLKGNR
ParentalNVTLTLSWNVVPNAGILPLVTGSGHVSVPFPDTYEITKSY
NVTLTLSWNVVP.AGILPLVTGSGHVSVPFPD.YEI.KSY
RetrocopyNVTLTLSWNVVPIAGILPLVTGSGHVSVPFPDAYEIMKSY

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 1 .66 RPM 11 .76 RPM
SRP017611_kidney 0 .00 RPM 22 .91 RPM
SRP017611_liver 0 .00 RPM 20 .27 RPM
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_119 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_119 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ocun_119 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Microcebus murinus ENSMICG000000019872 retrocopies
Oryctolagus cuniculus ENSOCUG00000029741 1 retrocopy
retro_ocun_119 ,
Otolemur garnettii ENSOGAG000000038251 retrocopy
Pongo abelii ENSPPYG000000152181 retrocopy
Sarcophilus harrisii ENSSHAG000000150121 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000136781 retrocopy



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