RetrogeneDB ID:

retro_rnor_229

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:1:176527725..176528697(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSRNOG00000017234
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSRNOG00000049348
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_rnor_229
ATGCCTTGCAACAGCACCAGCCACCCTTCTTTCTTCATTCTCCAAGGCATTCCTGGGATGGAAGACAAACACAGATGGAT
CTCCATCCCCTTCTCCTCCATGTACTTAATCACCGTGATGGGGAACTGCACCATTCTTCTCACCATCTCCATGGAGCGCT
CCCTGCACAAGCCCATGTTCCTGCTTCTCTTCCTCCTGGCTCTCACAGACTTGGGTATGTCGACGACCACCATTCCTAAG
GTGCTCTGCATATTCTGGTTTGGACAGAGTCAGATAAGCTATGAAGGCTGCTTGGCTCAGCTCTTCTTCATCCATTCCAT
CTCCGCCATGCAGTCATCTGTCCTGATGACCATGGCTTTTGACCGTTATGTGGCTATCTGTAAGCCCTTGCGCTACTCCA
CCATTCTTTCCAATAGTCGCATTGGGCTCATTGGCTTAGCGGGTCTGGTACGAGCAATCCTCTTTATTCTCCCCATGCCT
ATCCTCCTCCAGCATATGCCTTTTCATGCCAATCGAGTCATCCCCACAACCTACTGTGAGCACATGGCTGTGGTGAAGAT
GGTATGTGTCGATACCACAGTCAATAGGATATATGGTTTGGTCGTGGCCATGCTGGTGGTTGGGGTGGACATCTCAGCTA
TTGCCTCATCTTATGTGCTAATCCTACGAGCTATCATGCATCTGTCTTCCAAGGAAGCCCACCACAAAGCAGTCAACACC
TGCACCACACACATCTGCGTCATGCTCGTCTCCTATACCCCCAGTCTTTTCTCTTTTCTGACTCATCGCTTTGGAAGAGG
CATTCCACCTCATATCCACACTATTCTTGGCAACCTCTACTTCCTTGTACCACCCATGCTCAATCCTATCATTTATGGTG
TAAAAACCAAGGAATTTCGGGACAAAGTTACCAAATATTTATACAGGAGGAAGGAGCCTATAATTTTTTCTCACAATCAG
AAACTTGCTTGA

ORF - retro_rnor_229 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.38 %
Parental protein coverage: 99.67 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalFVLLGIPGMQDQHVWIAIPFCSMYILALVGNGTILYIIITDRALHEPMYLFLCLLSITDLVLCSTTLPKM
F.L.GIPGM.D.H.WI.IPF.SMY.....GN.TIL..I...R.LH.PM.L.L.LL..TDL....TT.PK.
RetrocopyFILQGIPGMEDKHRWISIPFSSMYLITVMGNCTILLTISMERSLHKPMFLLLFLLALTDLGMSTTTIPKV
ParentalLAIFWLRSHIISYHGCLTQMFFVHAESIISSTVLLAMAFDRYVAICHPLRYSTILTDTIIARIGVVAMMR
L.IFW.....ISY.GCL.Q.FF.H..S...S.VL..MAFDRYVAIC.PLRYSTIL....I..IG.....R
RetrocopyLCIFWFGQSQISYEGCLAQLFFIHSISAMQSSVLMTMAFDRYVAICKPLRYSTILSNSRIGLIGLAGLVR
ParentalGSLLMLPCPFLIGRLSFCQSHVIPHTYCEHMAVVKLACGDTRPNRVYGLTAALLVIGVDLFCIGLSYALI
..L..LP.P.L.....F....VIP.TYCEHMAVVK..C.DT..NR.YGL..A.LV.GVD...I..SY.LI
RetrocopyAILFILPMPILLQHMPFHANRVIPTTYCEHMAVVKMVCVDTTVNRIYGLVVAMLVVGVDISAIASSYVLI
ParentalAQAVFRLSSQEARSKALGTCGSHVCVILISYTPALFSFFTHRFGHHVPLHIHILLANVYLLFPPALNPVV
..A...LSS.EA..KA..TC..H.CV.L.SYTP.LFSF.THRFG...P.HIH..L.N.Y.L.PP.LNP..
RetrocopyLRAIMHLSSKEAHHKAVNTCTTHICVMLVSYTPSLFSFLTHRFGRGIPPHIHTILGNLYFLVPPMLNPII
ParentalYGVKTREIRERVAKVLCR
YGVKT.E.R..V.K.L.R
RetrocopyYGVKTKEFRDKVTKYLYR

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 0 .00 RPM
SRP017611_kidney 0 .00 RPM 0 .00 RPM
SRP017611_liver 0 .00 RPM 0 .00 RPM

ChIP-Seq - click to see more details

Rattus norvegicus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_rnor_229 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_229 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_229 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Rattus norvegicus ENSRNOG00000049348 1 retrocopy
retro_rnor_229 ,


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