RetrogeneDB ID:

retro_rnor_531

Retrocopy
location
Organism:Rat (Rattus norvegicus)
Coordinates:1:231865221..231867471(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSRNOG00000029315
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Senp5
Ensembl ID:ENSRNOG00000048136
Aliases:None
Description:Protein Senp5 [Source:UniProtKB/TrEMBL;Acc:D4A2S8]


Retrocopy-Parental alignment summary:






>retro_rnor_531
ATGAAAAAACAGAAGAAAATTCTATGGAAGAAAGGAATTCACTTAGCCTTTTCTGAGAAATGGAATACGGGATTTGGAGG
CTTTAAGAAACTCTATTTTCCCCAAAACTTGTGCTTTCTGAAAGCTAAGCTGGGAAGGCCAGTTGTTTGGCATCGGCAGT
CGAAGCATTTCCAGTGTAATAAGAGGGGTCTTCACATCCAGAAAACATGGGCCCAGGATGTACCACTTTGTTCAAAGACC
AAATCTGGAGTGGCCACTCAAAATGTTAGTTCTTTGTATGCCAAAGTGAAAAGAAAGGACACTAAGCACTTCATTTCCTC
TTCCAGGAGTCTCCTGAAACTCCAAGCAGATAAATTACTTTCTTCAGCAAAGAACTTGGGCCGTGAATACTGCAGAGAGA
AAAGCCTTCTGAAGGCAGGTCCTGGCTTGTCGGCAAATACTGTTTTAGGTAAGGCCAATGGTCACAAACCTAGCACGGAC
CCACAAGCTTCAGACTTTCCCATGAAGTTCAATGGGGAGAGCCAAAGTCCAAGTGACAGTGGCAAGACTGTGGTTTTGAA
CAAACATAGAAAACGAGTTTGTTATGGCTGCTACCAAGGGCTAGAGCACCACAGGAACAGGAGACCCCTGATTCCAAAAA
AGTTCCAACCTAACCAATATCGAAGAGTCAAAGTGTCTCTTATGATGTATGAGAAACTATCCATGATTAGATTTCGGTAT
AGGATTTTCAGATCCCAGCACTTCAGAACGAAAAGCAGAGTTTGCAAGCTAAGAAAAGCCCAGCAAAGCTGGGTGCAGAA
GGTCACTGGGGACCATCAAGAGAACTTTAGGGATAACAACACTGAGGGTGGCGATTGCAGCCCAGTCCCTTCCCTAGAAC
CTAAAGACCCTTGTCGGTGTCAGCCATACTTTCCAGACATGGACAGTAGTGCTGTGGTGAAGGGAAAAAACTGTCACGTG
CCTGATGGCCACACTAAAGAAAGTCCTGCCTTGGACAAGGAGCATGGTTTAGATGCAGCATTCCCTGACCAGCAGAATGG
CAGCACCACATACACTTGGGACCAGCCATTCTCTTCTCCTAAGTGGGAGTGTACAGAGCAAATTCATGAAATCCCTTTGA
TGGGACATCCTTCTAGTGACAACTTCACTCCGGGAACTGAAAGAGCTCTTATGACTCTGGGGCAGGAAAGCGGGACAAGT
GCTGTCAGCGATGACGGAGTGAAGCTGTCAGTGTCTGGAGCAGACGAATCTGTGAGTAGTGTAGATGGGCCTGTGTCTGA
GGAGCCCGCTCAGAATAAGAACTTCCAGATGGAGGAGGATGGGTCTCTCAGGCAGAACATTCTTAGTTTGAAACTGCTGG
ACCACCCTTACTGTAAGAGTCCACTGGATGCTCCCTTGGTGTGCAGTGAGCTCAAAGTAGAAAACCAAGTGGCAGGTGGC
AAGAGTGGCCAGACAGCGTCTCCCGTGGATGATGAGCAGCTCTCGACCTGCCTTTCTGGGTTCCTAGACGAGGTTATGAA
AAAGTATGGAAGTCTGGTCCCACTCAGTGAGAAAGATGTCCTTGGGAGATTAAAAGATGTCTTTAATGAAGACTTTTCTA
ATAGAAAACCATTTATCAATAGGGAAATAACAAACTACCGGGCCAGACATCAAAAGTGTAACTTCCGAATCTTCTACAAC
AAGCACATGCTGGATATGGACGACCTGGCAACTTTGGATGGTCAGAATTGGTTGAATGACCAGGTTATTAATATGTATGG
CGAGCTGATAATGGATGCAGTCCCAGACAAGGTCCACTTCTTCAACAGCTTTTTCCATAGACAGCTGGTAACCAAAGGCT
ATAATGGAGTTAAGAGATGGACTAAGAAGGTGGATTTGTTTAAAAAGAGTCTTCTGTTGATTCCCATCCACCTGGAGGTC
CACTGGTCTCTCATTACTGTGACACTCTCCAGTCGGATTATTTCATTTTATGATTCCCAAGGCATTCATTTTAAATTTTG
TGTAGAGAATATAAGAAAGTATTTGCTGACTGAAGCCAGAGAAAAAAATAGACCTGAATTTCTTCAGGGTTGGCAGACTG
CTGTTACAAAGTGTATTCCACAACAGAAAAATGACAGTGACTGTGGAGTCTTTGTGCTCCAGTACTGCAAGTGCCTCGCC
CTAGAGCAGCCTTTCCAGTTTTCTCAAGAAGACATGCCTCGAGTGCGGAAGAGGATCTATAAGGAGCTGTGTGAGTGCCG
GCTCCTGGAC

ORF - retro_rnor_531 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.8 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMKKQKKILWKKGIHLAFSEKWNAGFGGFKKLYFPQNLCFLKAKLGRPVVWHRQSKHFQCNKRGLHIQKTW
MKKQKKILWKKGIHLAFSEKWN.GFGGFKKLYFPQNLCFLKAKLGRPVVWHRQSKHFQCNKRGLHIQKTW
RetrocopyMKKQKKILWKKGIHLAFSEKWNTGFGGFKKLYFPQNLCFLKAKLGRPVVWHRQSKHFQCNKRGLHIQKTW
ParentalTQDVPLCSKTKSGVATQNVSSLYAKVKRKDTKHFISSSRSLLKLQADKLLSSAKNLGREYCREKSLLKAV
.QDVPLCSKTKSGVATQNVSSLYAKVKRKDTKHFISSSRSLLKLQADKLLSSAKNLGREYCREKSLLKA.
RetrocopyAQDVPLCSKTKSGVATQNVSSLYAKVKRKDTKHFISSSRSLLKLQADKLLSSAKNLGREYCREKSLLKAG
ParentalTGLSANTVLGKANGHKPSTDPQASDFPMKFNGESQSPSDSGKTVVLNKHRKRVCYGCYQGLEHHRNRRPL
.GLSANTVLGKANGHKPSTDPQASDFPMKFNGESQSPSDSGKTVVLNKHRKRVCYGCYQGLEHHRNRRPL
RetrocopyPGLSANTVLGKANGHKPSTDPQASDFPMKFNGESQSPSDSGKTVVLNKHRKRVCYGCYQGLEHHRNRRPL
ParentalIPKKFQPNQHRRVKVSLMMYEKLSMIRFRYRIFRSQHFRTKSRVCKLRKAQRSWVQKVTGDHQENFRDNN
IPKKFQPNQ.RRVKVSLMMYEKLSMIRFRYRIFRSQHFRTKSRVCKLRKAQ.SWVQKVTGDHQENFRDNN
RetrocopyIPKKFQPNQYRRVKVSLMMYEKLSMIRFRYRIFRSQHFRTKSRVCKLRKAQQSWVQKVTGDHQENFRDNN
ParentalTEGGDCSPVPSLEPKDPCRCQPYFPDMDSSAVVKGKNCHVPDGHTKESPALDKEHGLDAAFPDQQNGSTT
TEGGDCSPVPSLEPKDPCRCQPYFPDMDSSAVVKGKNCHVPDGHTKESPALDKEHGLDAAFPDQQNGSTT
RetrocopyTEGGDCSPVPSLEPKDPCRCQPYFPDMDSSAVVKGKNCHVPDGHTKESPALDKEHGLDAAFPDQQNGSTT
ParentalYTWDQPSSSPKWECTEQIHEIPLMGHPSSDNFTPGTERALMTLGQESGTSAVSDDGVKLSVSGADESVSS
YTWDQP.SSPKWECTEQIHEIPLMGHPSSDNFTPGTERALMTLGQESGTSAVSDDGVKLSVSGADESVSS
RetrocopyYTWDQPFSSPKWECTEQIHEIPLMGHPSSDNFTPGTERALMTLGQESGTSAVSDDGVKLSVSGADESVSS
ParentalVDGPVSEEPAQNENFQMEEDGSLRQNILSSKLLDHPYCKSPLDAPLVCSELKVENQVAGGKSGQTASPVD
VDGPVSEEPAQN.NFQMEEDGSLRQNILS.KLLDHPYCKSPLDAPLVCSELKVENQVAGGKSGQTASPVD
RetrocopyVDGPVSEEPAQNKNFQMEEDGSLRQNILSLKLLDHPYCKSPLDAPLVCSELKVENQVAGGKSGQTASPVD
ParentalDEQLSTCLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYRARHQKCNFRIFYN
DEQLSTCLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYRARHQKCNFRIFYN
RetrocopyDEQLSTCLSGFLDEVMKKYGSLVPLSEKDVLGRLKDVFNEDFSNRKPFINREITNYRARHQKCNFRIFYN
ParentalKHMLDMDDLATLDGQNWLNDQVINMYGELIMDAVPDKVHFFNSFFHRQLVTKGYNGVKRWTKKVDLFKKS
KHMLDMDDLATLDGQNWLNDQVINMYGELIMDAVPDKVHFFNSFFHRQLVTKGYNGVKRWTKKVDLFKKS
RetrocopyKHMLDMDDLATLDGQNWLNDQVINMYGELIMDAVPDKVHFFNSFFHRQLVTKGYNGVKRWTKKVDLFKKS
ParentalLLLIPIHLEVHWSLITVTLSSRIISFYDSQGIHFKFCVENIRKYLLTEAREKNRPEFLQGWQTAVTKCIP
LLLIPIHLEVHWSLITVTLSSRIISFYDSQGIHFKFCVENIRKYLLTEAREKNRPEFLQGWQTAVTKCIP
RetrocopyLLLIPIHLEVHWSLITVTLSSRIISFYDSQGIHFKFCVENIRKYLLTEAREKNRPEFLQGWQTAVTKCIP
ParentalQQKNDSDCGVFVLQYCKCLALEQPFQFSQEDMPRVRKRIYKELCECRLLD
QQKNDSDCGVFVLQYCKCLALEQPFQFSQEDMPRVRKRIYKELCECRLLD
RetrocopyQQKNDSDCGVFVLQYCKCLALEQPFQFSQEDMPRVRKRIYKELCECRLLD

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 .07 RPM 1 .29 RPM
SRP017611_kidney 0 .07 RPM 0 .35 RPM
SRP017611_liver 0 .00 RPM 0 .47 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_531 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_531 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_rnor_531 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Rattus norvegicus ENSRNOG000000017731 retrocopy
retro_rnor_1568,
Rattus norvegicus ENSRNOG00000048136 2 retrocopies
retro_rnor_1522, retro_rnor_531 ,
Tursiops truncatus ENSTTRG000000138991 retrocopy
retro_ttru_1914,


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