RetrogeneDB ID:

retro_stub_47

Retrocopy
location
Organism:Potato (Solanum tuberosum)
Coordinates:1:84467688..84468990(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:PGSC0003DMG400041580
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:PGSC0003DMG400002183
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_stub_47
ATGTCGCATAGGATTAACATTATTACCAGCGATGGAACAAAGGACAATGTTAATGTGGATCTGTCATTCCAAAATTTTAA
TTCGCTACCAACATCGACTGGTTCCAGTATAACACAAAGCGGCCGTCTTCTTTCTCTAGACATTTTTCGCGGTCTCACTG
TCGTGTTAATGATATTTGTGGAATATGCTGGTGGAATTTATCCTACTGTTAATCATTCACCGTGGAATGGTATAACTCTG
GCGGATTTTGTTATGCCGTTTTTCCTCTTCATTGTTGGAGTATCACTTGCACTCGCCTACAAAAACTTGTCCTGTAGACT
GATCGCGACTAGAAAAGCAATCTATCGCGGTATTAAGCTTTTCATCATTGGCCTCTTTCTTCAAGGAGGCTATTTTCATG
GTTTCGGATATTTAACTTATGGTGTAGATATCGAGAACATTAGATGGATGGGCATATTGCAGAGGATTGCAATATCATTT
TTGGTAGCATCAATATGTGAAATTTGGCTTCAGGCTACTAATTTTAGAGTCAATTCAGGACGATCTTTACTGAAGAAATA
TCGTCTTCAATGTGCCATGACTATAATGGTTACTGTTATATACCTTTCGTTGTTCTACGGTTTATATGTTCCTGATTGGG
AGTATCAGATCTCTTCGTCGAAAACAGAGATTTTCTCAGTGAAATGTGGTGTACGGGGAGATACTGGGCCAGCGTGTAAT
GCTGTTGGAATGATCAATCGAAAAATACTGGGAATTCGACATTTGTATACCAAGCCTATTTATGGACGAATAAAAGCATG
TAGTGTCAATTCCCCTAGCAACGGTCCCCTTCCTCCGAATGCTCCATCTTGGTGTCAAGCCCCATTCGATCCAGAAGGAC
TATTGAGCTCATTAATGGCGATTGTTACTTGCTTTATTGGTCTACATTACGGGCACGTTATTGTCAATTTCAAAGATCAT
AAACATAGAATTCAGCAATGGTTGATACCGTCCTCTAGTCTTGTATTGTTGGGCGTAATTTGTGAGTACGGTTTCGGGAT
GCATTTGAATAAGGCTTTGTATTCTTTCAGTTATATGTGTGTTACTGCTGGTGCTGCTGGATTTCTGTTTACTGCAGTGT
ATGTGATGGTTGATGTATGGGGCTATTCGAAATACTGGACCATAGTACTGAAATGGATGGGAAAGAACGCGTTGCTGATT
TATGTTCTTGTATCGTGCAACATTCTGCCTGTAATTTTGCAAGGATTCTATTGGAAGCGGCCTGAAAATAACATTCTTAG
GTTGATTGGTATCGGACACTAG

ORF - retro_stub_47 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.35 %
Parental protein coverage: 81.4 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSARLLSLDIFRGITVALMIFVEYAGGIYPAINHSPWDGITLADFVMPFFLFIVGVSLALAYKNMPCRLTA
S.RLLSLDIFRG.TV.LMIFVEYAGGIYP..NHSPW.GITLADFVMPFFLFIVGVSLALAYKN..CRL.A
RetrocopySGRLLSLDIFRGLTVVLMIFVEYAGGIYPTVNHSPWNGITLADFVMPFFLFIVGVSLALAYKNLSCRLIA
ParentalTGKAIHRALKLLILGLFLQGGYFHGVKNLTYGVDIERIRWMGILQRIAISFLLAAMCEIWLKGDN-KVNS
T.KAI.R..KL.I.GLFLQGGYFHG...LTYGVDIE.IRWMGILQRIAISFL.A..CEIWL...N..VNS
RetrocopyTRKAIYRGIKLFIIGLFLQGGYFHGFGYLTYGVDIENIRWMGILQRIAISFLVASICEIWLQATNFRVNS
ParentalGQSLLKRYHQQWAMAIMVTALYLSLFYGLYVPDWEYQMPMDISSSEAKIFTVKCGVRGDSGPACNAVGMI
G.SLLK.Y..Q.AM.IMVT..YLSLFYGLYVPDWEYQ....ISSS...IF.VKCGVRGD.GPACNAVGMI
RetrocopyGRSLLKKYRLQCAMTIMVTVIYLSLFYGLYVPDWEYQ----ISSSKTEIFSVKCGVRGDTGPACNAVGMI
ParentalDRKILGIQHLYERAIYGRSKECSVNSPNNGPLPLDAPSWCQAPFDPEGLLSSLMAIVTCFVGLHYGHIIV
.RKILGI.HLY...IYGR.K.CSVNSP.NGPLP..APSWCQAPFDPEGLLSSLMAIVTCF.GLHYGH.IV
RetrocopyNRKILGIRHLYTKPIYGRIKACSVNSPSNGPLPPNAPSWCQAPFDPEGLLSSLMAIVTCFIGLHYGHVIV
ParentalHFKDHKVRIQQWLVPSSCLVLLGVTCDC-LGMHANKVLYSFSYMCITAGSAGFLFTAVYMMVDVWGY-RH
.FKDHK.RIQQWL.PSS.LVLLGV.C....GMH.NK.LYSFSYMC.TAG.AGFLFTAVY.MVDVWGY...
RetrocopyNFKDHKHRIQQWLIPSSSLVLLGVICEYGFGMHLNKALYSFSYMCVTAGAAGFLFTAVYVMVDVWGYSKY
ParentalWTTILKWMGTNALLIYILVSCNILPVLLQGFYWRRPENNILTMIGVG
WT..LKWMG.NALLIY.LVSCNILPV.LQGFYW.RPENNIL..IG.G
RetrocopyWTIVLKWMGKNALLIYVLVSCNILPVILQGFYWKRPENNILRLIGIG

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_47 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 PGSC0003DMG400002183 1 retrocopy
retro_stub_47 ,


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