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:
| Parental | MATSKPQRTPAEIEDIILRKILLVSLVDSMENDTRVVYLEMTAAEILSEGKELRLSRDLMERVLIDRLSG |
| M.T.KPQRTPAEIEDIILRKILLVSLVDS...DTR.VYLEMTAAE.LSEGKEL.LSRDLMERVLIDRLSG | |
| Retrocopy | MVTCKPQRTPAEIEDIILRKILLVSLVDSLVSDTRIVYLEMTAAEFLSEGKELKLSRDLMERVLIDRLSG |
| Parental | NFVSAEPPFQYLVNCYRRAHEEGKKIASMKDKNVRSEMELVVKQVKRLAVSYCRIHLGNPDMFPNWDMAP |
| NFVSAEPPFQYLVNCYRR.HEEGKKIASMKDKNVRSEM.LVVKQVKRL.VSYCRIHLGNPDMFPNWDMAP | |
| Retrocopy | NFVSAEPPFQYLVNCYRREHEEGKKIASMKDKNVRSEMGLVVKQVKRLVVSYCRIHLGNPDMFPNWDMAP |
| Parental | ANVSLLLPLLFSEVSSSVDVFGGSSGSGGVSSPPGFLDELLKDADFDSMDPILKQLYEDLRGTVLKVSAL |
| ANVSLLLPLLFSE.S.SVD..GGSSGSGGVSSPPGFLDEL.KD...D.M.PILKQLYEDLRGTVL.VS.L | |
| Retrocopy | ANVSLLLPLLFSEFSTSVDEYGGSSGSGGVSSPPGFLDELFKDGNCDNMEPILKQLYEDLRGTVLNVSVL |
| Parental | GNFQQPLRALLFLVKYPVGAKCLVNHPWWIPNSVYMNGRVIEMTSILGPFFHVSALPDHTIFKSQPDVGQ |
| GNFQQPLRALLFLVKYPVGAKCLVNHPWWIP.S.YMNGRVIEMTSILGPFFHVSALPDHTIFKSQPDVGQ | |
| Retrocopy | GNFQQPLRALLFLVKYPVGAKCLVNHPWWIPDSQYMNGRVIEMTSILGPFFHVSALPDHTIFKSQPDVGQ |
| Parental | QCFSESATRRPADLLSSFTTIKTVMNNLYDGLAEVLMSLLKNSTIRENVLGYLAAVINKNSSRAQLQVDP |
| QCFSESAT.RPADLLSS.TTI.TVMNNLYDGL.EVLM.LLKNST.RENVLGYLA.VINKNSSRA.LQVDP | |
| Retrocopy | QCFSESATGRPADLLSSYTTITTVMNNLYDGLTEVLMTLLKNSTTRENVLGYLATVINKNSSRAKLQVDP |
| Parental | LSCASSGMFVNLSAVMLRLCEPFLDANLTKRDKIDPQYVFSSTRLELRGLTALHASSEEVSEWINQNNPG |
| LSCASSGMFVNLS.VMLRLCEPFLD.NLTKRDKIDPQYVFSSTRLELR.LTALHASSEEVSEWINQNNPG | |
| Retrocopy | LSCASSGMFVNLSVVMLRLCEPFLDVNLTKRDKIDPQYVFSSTRLELRELTALHASSEEVSEWINQNNPG |
| Parental | KVDVAKEGSDGENRLLASQEATSSGNDSGGPSILHYNNPISSSSEKAKYPFICECFFMTARVLNLGLLKA |
| KVDV.K.GS.G.N.LLASQEATSSGND.GGPSILHYNNPISSS.EKAKYPFICECFFMTARVLNLGLLKA | |
| Retrocopy | KVDVSKDGSVGKNQLLASQEATSSGNDNGGPSILHYNNPISSS-EKAKYPFICECFFMTARVLNLGLLKA |
| Parental | FSDFKHLVQDISRSEDNLSTMKTMLEQTPSPQLQQEIARLEKDLESYSQEKLCYEAQILRDGGLLQRALS |
| FSDFKHLVQDISR..D.LSTMKTMLEQTPSPQLQQEI..LEKDLESYSQE.LCYEAQILRDGGLLQRALS | |
| Retrocopy | FSDFKHLVQDISRCKDDLSTMKTMLEQTPSPQLQQEISHLEKDLESYSQEELCYEAQILRDGGLLQRALS |
| Parental | FYRLMVVWLVELVGGFKMPLPSPCPMEFSSMPEHFVEDAMELLIFASRIPRALDGVLLDDFMNFIIMFMA |
| FYRLM.VWLV.LVGGFKMPLPSPCPMEF.SMPEHFVED.MELL.FASRIP.ALDGVLLDDFMNFII.FMA | |
| Retrocopy | FYRLMLVWLVGLVGGFKMPLPSPCPMEFASMPEHFVEDTMELLSFASRIPEALDGVLLDDFMNFIILFMA |
| Parental | SPEYIRNPYLRAKMVEVLNCWMPRRSGSTATSTLFEGHQLSLEYLVKNLLKLYVDIEFTGSHTQFYDKFN |
| SPEYIRNPYLRAKMVEVLNCWMPR...STA.STLFEGHQLSL.YLVKNLLKLYVDIEFTGSHTQFYDKFN | |
| Retrocopy | SPEYIRNPYLRAKMVEVLNCWMPRDYSSTAMSTLFEGHQLSLQYLVKNLLKLYVDIEFTGSHTQFYDKFN |
| Parental | IRHNIAELLEYLWQVPSHRNAWRQIAKEEEKGVYLNFLNFLINDSIYLLDESLNKILELKELEAEMSNTA |
| IRHNIAELLEYLWQVPSH.NAWR.IAKEEEKGVYLNFLNFLINDSIYLLDESL.KILELKELEAEMSNT. | |
| Retrocopy | IRHNIAELLEYLWQVPSHQNAWRRIAKEEEKGVYLNFLNFLINDSIYLLDESLGKILELKELEAEMSNTE |
| Parental | EWEQRPAQERQERTRLFHSQENIIRIDMKLANEDVSLLAFTSEQITVPFLLPEMVERVASMLNYFLLQLV |
| EWE..PAQERQERT.LFHSQENII..DMKLANEDVSLLAFTSEQITVPFLLPEMVERVASMLNYFLLQLV | |
| Retrocopy | EWERKPAQERQERTSLFHSQENIIQTDMKLANEDVSLLAFTSEQITVPFLLPEMVERVASMLNYFLLQLV |
| Parental | GPQRKSLSLKDPEKYEFRPKELLKQIVKIYVHLARGDKEKIFPAAIIRDGRSYSDQIFSAAADVLRRIGE |
| GPQRKSLSLKDPEKYEFRPKELLKQIVKIYVHLARGDKE.IFPAAIIRDGRSYSDQIFSAA.DVL.RIGE | |
| Retrocopy | GPQRKSLSLKDPEKYEFRPKELLKQIVKIYVHLARGDKENIFPAAIIRDGRSYSDQIFSAAVDVLGRIGE |
| Parental | DMRIIQEFIDLGAKAKIAASEAMDAEAALGDIPDEFLDPIQYTLMKDPVILPSSRITVDRPVIQRHLLSD |
| DM.IIQEFIDL.AKAK.AASEA.DAEAALGDIPDEFLDPIQYTLMKDPVILP.SR.T.DRPVIQRHLLS. | |
| Retrocopy | DMSIIQEFIDLAAKAKTAASEALDAEAALGDIPDEFLDPIQYTLMKDPVILPFSRKTMDRPVIQRHLLSQ |
| Parental | STDPFNRSHLTADMLIPDTELKAKIEEFIRSHELKKPGED |
| STDPF.RSHLTADMLIP.T.LKAKIEEFIRSHE..K..ED | |
| Retrocopy | STDPFSRSHLTADMLIPNTKLKAKIEEFIRSHEPQKTLED |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Solanum tuberosum was not studied using RNA-Seq expression data.
Solanum tuberosum was not studied using ChIP-Seq data.
Solanum tuberosum was not studied using EST data.
Solanum tuberosum was not studied using FANTOM5 data.
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 ,
|