RetrogeneDB ID:

retro_stub_6

Retrocopy
location
Organism:Potato (Solanum tuberosum)
Coordinates:6:55322435..55325495(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:PGSC0003DMG400007132
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:PGSC0003DMG400001440
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_stub_6
ATGGTGACTTGTAAACCACAGAGAACGCCGGCAGAGATCGAAGATATAATTCTTCGGAAAATCTTACTTGTATCTCTAGT
TGATTCATTAGTAAGCGATACACGCATTGTGTATCTAGAGATGACGGCGGCGGAGTTTTTGAGTGAGGGTAAAGAGTTAA
AGTTGTCTAGGGATTTGATGGAGAGGGTTTTAATCGACCGACTTTCCGGTAATTTTGTATCGGCGGAACCACCATTTCAG
TATTTGGTCAATTGTTACCGTCGGGAACATGAAGAGGGGAAGAAGATTGCGTCGATGAAGGATAAGAATGTTAGGTCTGA
GATGGGATTGGTGGTTAAGCAAGTAAAGAGACTTGTTGTATCATACTGTAGGATACATTTAGGAAATCCTGATATGTTTC
CCAATTGGGATATGGCACCAGCAAATGTATCTCTGTTGCTTCCTTTGTTGTTTTCCGAGTTTTCAACTTCTGTGGATGAA
TATGGTGGGAGCAGTGGTAGTGGTGGAGTTTCAAGTCCGCCTGGGTTTTTGGATGAGTTATTTAAGGATGGGAATTGTGA
TAATATGGAACCAATACTGAAGCAGTTGTATGAGGATTTGAGAGGGACTGTGCTAAATGTTTCAGTTTTGGGTAATTTTC
AGCAGCCTCTCAGAGCTTTATTGTTTTTGGTTAAGTATCCAGTAGGTGCAAAGTGTTTGGTGAATCATCCTTGGTGGATT
CCGGATAGTCAGTATATGAATGGAAGAGTTATTGAGATGACAAGCATTTTGGGTCCTTTCTTTCATGTCAGTGCTTTGCC
TGACCATACAATCTTCAAGAGTCAACCGGATGTTGGCCAGCAGTGTTTCTCTGAATCGGCCACAGGTCGTCCTGCTGATC
TCTTGTCTTCTTACACAACAATCACAACTGTTATGAATAACTTGTATGATGGCTTGACAGAAGTTCTGATGACTCTTCTG
AAAAATTCAACCACTCGTGAAAATGTCCTTGGATATCTTGCAACAGTTATAAACAAAAATTCGTCAAGGGCAAAGTTGCA
GGTTGATCCATTATCTTGTGCTAGTTCAGGCATGTTTGTAAATCTCAGTGTCGTTATGCTTCGGCTTTGTGAACCTTTCT
TAGATGTCAATTTGACAAAACGGGACAAGATTGATCCCCAATATGTGTTTTCTAGCACCCGTCTGGAACTGAGGGAGTTG
ACTGCTCTGCATGCATCATCAGAAGAAGTCTCTGAATGGATAAATCAAAATAATCCTGGGAAAGTTGATGTCTCTAAAGA
TGGCAGTGTTGGAAAAAATCAGTTGTTGGCATCTCAGGAAGCTACAAGCTCGGGGAATGACAATGGTGGACCTTCAATTC
TCCACTATAACAACCCAATATCAAGTAGTGAGAAAGCTAAATACCCCTTCATATGTGAATGCTTCTTCATGACTGCACGG
GTGCTCAACCTCGGCCTCCTAAAAGCATTTTCAGACTTTAAGCATCTTGTTCAGGACATTTCAAGATGTAAAGATGATTT
GTCTACCATGAAAACCATGCTAGAACAAACACCCTCGCCACAGTTGCAGCAGGAAATATCTCACTTGGAAAAAGATCTTG
AGTCGTATTCACAGGAAGAATTATGCTATGAAGCCCAAATACTGAGGGATGGAGGACTTCTCCAGCGTGCATTATCCTTC
TACAGGTTGATGCTTGTTTGGCTGGTCGGGCTTGTTGGTGGTTTTAAGATGCCTTTACCTTCCCCTTGCCCTATGGAGTT
TGCATCTATGCCTGAGCACTTCGTTGAAGATACCATGGAGCTGCTAAGTTTTGCTTCTCGGATTCCTGAAGCTTTGGATG
GTGTCTTGCTGGACGACTTCATGAATTTCATTATCTTGTTCATGGCAAGTCCAGAATATATCAGAAACCCTTACCTTAGA
GCAAAGATGGTTGAAGTTCTAAACTGTTGGATGCCCCGTGATTACAGCTCTACTGCAATGTCTACTTTGTTTGAGGGGCA
TCAACTCTCTCTGCAGTACCTTGTGAAAAATCTTTTGAAGCTTTATGTTGACATTGAATTTACAGGTTCCCACACGCAGT
TCTATGATAAATTTAATATCCGCCACAACATTGCTGAACTACTTGAATATCTTTGGCAAGTTCCAAGTCACCAGAATGCA
TGGAGACGGATCGCGAAGGAGGAGGAGAAGGGTGTTTATTTGAATTTCTTAAACTTCTTGATTAATGATAGCATCTATCT
TCTCGATGAAAGTCTCGGTAAAATTCTTGAACTAAAAGAGCTGGAAGCTGAAATGTCTAACACAGAGGAATGGGAGCGAA
AACCAGCTCAAGAAAGGCAGGAGAGAACCAGTCTGTTCCATTCACAAGAGAATATAATTCAAACTGATATGAAATTGGCA
AATGAAGATGTGAGCCTGTTAGCATTTACTTCAGAACAAATCACTGTCCCTTTTCTTCTTCCTGAGATGGTGGAAAGAGT
TGCTAGCATGTTGAATTACTTCTTACTACAGCTGGTAGGTCCACAAAGAAAATCTCTTAGCTTGAAAGACCCTGAAAAGT
ATGAATTTCGTCCGAAAGAGTTGCTCAAACAGATTGTGAAAATATATGTGCATTTGGCGAGAGGAGATAAGGAGAACATC
TTTCCAGCTGCAATTATAAGAGATGGTCGATCGTACAGTGATCAGATATTTAGTGCTGCAGTTGATGTCCTTGGAAGAAT
TGGTGAAGATATGAGTATCATACAAGAGTTCATCGACCTTGCTGCAAAGGCCAAGACTGCAGCTTCAGAAGCACTGGATG
CTGAGGCTGCTCTTGGAGACATTCCTGATGAATTCCTTGACCCGATCCAATATACTTTAATGAAGGATCCTGTCATTCTT
CCCTTTTCGAGGAAAACAATGGACCGGCCTGTTATTCAGCGGCACCTTCTTAGTCAGAGTACAGACCCATTTAGCCGGTC
TCATCTAACTGCGGACATGTTGATTCCCAACACCAAGTTGAAGGCGAAAATCGAAGAGTTCATCCGGTCCCATGAACCGC
AGAAGACTTTGGAGGATTAG

ORF - retro_stub_6 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.37 %
Parental protein coverage: 98.08 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMATSKPQRTPAEIEDIILRKILLVSLVDSMENDTRVVYLEMTAAEILSEGKELRLSRDLMERVLIDRLSG
M.T.KPQRTPAEIEDIILRKILLVSLVDS...DTR.VYLEMTAAE.LSEGKEL.LSRDLMERVLIDRLSG
RetrocopyMVTCKPQRTPAEIEDIILRKILLVSLVDSLVSDTRIVYLEMTAAEFLSEGKELKLSRDLMERVLIDRLSG
ParentalNFVSAEPPFQYLVNCYRRAHEEGKKIASMKDKNVRSEMELVVKQVKRLAVSYCRIHLGNPDMFPNWDMAP
NFVSAEPPFQYLVNCYRR.HEEGKKIASMKDKNVRSEM.LVVKQVKRL.VSYCRIHLGNPDMFPNWDMAP
RetrocopyNFVSAEPPFQYLVNCYRREHEEGKKIASMKDKNVRSEMGLVVKQVKRLVVSYCRIHLGNPDMFPNWDMAP
ParentalANVSLLLPLLFSEVSSSVDVFGGSSGSGGVSSPPGFLDELLKDADFDSMDPILKQLYEDLRGTVLKVSAL
ANVSLLLPLLFSE.S.SVD..GGSSGSGGVSSPPGFLDEL.KD...D.M.PILKQLYEDLRGTVL.VS.L
RetrocopyANVSLLLPLLFSEFSTSVDEYGGSSGSGGVSSPPGFLDELFKDGNCDNMEPILKQLYEDLRGTVLNVSVL
ParentalGNFQQPLRALLFLVKYPVGAKCLVNHPWWIPNSVYMNGRVIEMTSILGPFFHVSALPDHTIFKSQPDVGQ
GNFQQPLRALLFLVKYPVGAKCLVNHPWWIP.S.YMNGRVIEMTSILGPFFHVSALPDHTIFKSQPDVGQ
RetrocopyGNFQQPLRALLFLVKYPVGAKCLVNHPWWIPDSQYMNGRVIEMTSILGPFFHVSALPDHTIFKSQPDVGQ
ParentalQCFSESATRRPADLLSSFTTIKTVMNNLYDGLAEVLMSLLKNSTIRENVLGYLAAVINKNSSRAQLQVDP
QCFSESAT.RPADLLSS.TTI.TVMNNLYDGL.EVLM.LLKNST.RENVLGYLA.VINKNSSRA.LQVDP
RetrocopyQCFSESATGRPADLLSSYTTITTVMNNLYDGLTEVLMTLLKNSTTRENVLGYLATVINKNSSRAKLQVDP
ParentalLSCASSGMFVNLSAVMLRLCEPFLDANLTKRDKIDPQYVFSSTRLELRGLTALHASSEEVSEWINQNNPG
LSCASSGMFVNLS.VMLRLCEPFLD.NLTKRDKIDPQYVFSSTRLELR.LTALHASSEEVSEWINQNNPG
RetrocopyLSCASSGMFVNLSVVMLRLCEPFLDVNLTKRDKIDPQYVFSSTRLELRELTALHASSEEVSEWINQNNPG
ParentalKVDVAKEGSDGENRLLASQEATSSGNDSGGPSILHYNNPISSSSEKAKYPFICECFFMTARVLNLGLLKA
KVDV.K.GS.G.N.LLASQEATSSGND.GGPSILHYNNPISSS.EKAKYPFICECFFMTARVLNLGLLKA
RetrocopyKVDVSKDGSVGKNQLLASQEATSSGNDNGGPSILHYNNPISSS-EKAKYPFICECFFMTARVLNLGLLKA
ParentalFSDFKHLVQDISRSEDNLSTMKTMLEQTPSPQLQQEIARLEKDLESYSQEKLCYEAQILRDGGLLQRALS
FSDFKHLVQDISR..D.LSTMKTMLEQTPSPQLQQEI..LEKDLESYSQE.LCYEAQILRDGGLLQRALS
RetrocopyFSDFKHLVQDISRCKDDLSTMKTMLEQTPSPQLQQEISHLEKDLESYSQEELCYEAQILRDGGLLQRALS
ParentalFYRLMVVWLVELVGGFKMPLPSPCPMEFSSMPEHFVEDAMELLIFASRIPRALDGVLLDDFMNFIIMFMA
FYRLM.VWLV.LVGGFKMPLPSPCPMEF.SMPEHFVED.MELL.FASRIP.ALDGVLLDDFMNFII.FMA
RetrocopyFYRLMLVWLVGLVGGFKMPLPSPCPMEFASMPEHFVEDTMELLSFASRIPEALDGVLLDDFMNFIILFMA
ParentalSPEYIRNPYLRAKMVEVLNCWMPRRSGSTATSTLFEGHQLSLEYLVKNLLKLYVDIEFTGSHTQFYDKFN
SPEYIRNPYLRAKMVEVLNCWMPR...STA.STLFEGHQLSL.YLVKNLLKLYVDIEFTGSHTQFYDKFN
RetrocopySPEYIRNPYLRAKMVEVLNCWMPRDYSSTAMSTLFEGHQLSLQYLVKNLLKLYVDIEFTGSHTQFYDKFN
ParentalIRHNIAELLEYLWQVPSHRNAWRQIAKEEEKGVYLNFLNFLINDSIYLLDESLNKILELKELEAEMSNTA
IRHNIAELLEYLWQVPSH.NAWR.IAKEEEKGVYLNFLNFLINDSIYLLDESL.KILELKELEAEMSNT.
RetrocopyIRHNIAELLEYLWQVPSHQNAWRRIAKEEEKGVYLNFLNFLINDSIYLLDESLGKILELKELEAEMSNTE
ParentalEWEQRPAQERQERTRLFHSQENIIRIDMKLANEDVSLLAFTSEQITVPFLLPEMVERVASMLNYFLLQLV
EWE..PAQERQERT.LFHSQENII..DMKLANEDVSLLAFTSEQITVPFLLPEMVERVASMLNYFLLQLV
RetrocopyEWERKPAQERQERTSLFHSQENIIQTDMKLANEDVSLLAFTSEQITVPFLLPEMVERVASMLNYFLLQLV
ParentalGPQRKSLSLKDPEKYEFRPKELLKQIVKIYVHLARGDKEKIFPAAIIRDGRSYSDQIFSAAADVLRRIGE
GPQRKSLSLKDPEKYEFRPKELLKQIVKIYVHLARGDKE.IFPAAIIRDGRSYSDQIFSAA.DVL.RIGE
RetrocopyGPQRKSLSLKDPEKYEFRPKELLKQIVKIYVHLARGDKENIFPAAIIRDGRSYSDQIFSAAVDVLGRIGE
ParentalDMRIIQEFIDLGAKAKIAASEAMDAEAALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD
DM.IIQEFIDL.AKAK.AASEA.DAEAALGDIPDEFLDPIQYTLMKDPVILP.SR.T.DRPVIQRHLLS.
RetrocopyDMSIIQEFIDLAAKAKTAASEALDAEAALGDIPDEFLDPIQYTLMKDPVILPFSRKTMDRPVIQRHLLSQ
ParentalSTDPFNRSHLTADMLIPDTELKAKIEEFIRSHELKKPGED
STDPF.RSHLTADMLIP.T.LKAKIEEFIRSHE..K..ED
RetrocopySTDPFSRSHLTADMLIPNTKLKAKIEEFIRSHEPQKTLED

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






RNA-Seq - click to see more details

Solanum tuberosum was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Solanum tuberosum was not studied using ChIP-Seq data.

EST - click to see more details

Solanum tuberosum was not studied using EST data.

TSS - click to see more details

Solanum tuberosum was not studied using FANTOM5 data.

Lab - click to see more details

retro_stub_6 was not experimentally validated.

Retrocopy orthology:
Solanum tuberosum does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Solanum tuberosum PGSC0003DMG400001440 1 retrocopy
retro_stub_6 ,


Copyright © RetrogeneDB 2014-2017