RetrogeneDB ID: | retro_hvul_4 | ||
Retrocopy location | Organism: | Barley (Hordeum vulgare) | |
| Coordinates: | 7:525258730..525262552(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | MLOC_37065 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | MLOC_10099 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_hvul_4
ATGACCGAGTTCATCTGCCCCAAATGCCGCATGGCGCAGCGCCTCCCCCCGCAGCTCATGCCCTACTCCTCCCCGCCCAA
GGCGTCCCCTACCCCGCCTCCGCCCCAGCCTCCTCCCCTTCCTCCTCACCCTCAGTCTCAGCCCGCGCCTCCCGCTCCCG
CTCTCCCCGCCGCTTCCCGCCGCTCTGGGCCGCGGGCGCAGGGCGTGGACCCCACCAAGATCCAGCTGCCCTGCGCGCGC
TGCAAGGCCATCCTCAACGTGCCGCACGGCCTCGCCCGCTTCCGCTGCCCGCAGTGCGACGTCGACCTCGCCGTCGACAT
CTCCAAGCTCCAGCATTTCCTTACCGCCGCCGCCCCTGGGCCTGGCTTCGTTCCTCCACCGCCTCCGCCCGCGCCTCCGC
TCCCAATGCCGCACATGCCCTTCCTGCCGATGATGCCGCCCCCGCGCATGCCGATGCCCCCAATGGTCCCGCCACCCGAG
CCGCCGGAGGAGATCAACGAGGTTGCGCTTGACGTTGAACGCGAGGAAGATGAAGGTGACACTGTTGGTGAAACTTTCAT
GGACTACAGGCCTCCTAAGCTGTCTCTTGGTCTTCCTCATCCGGATCCTGTGGTGGAGACTTCATCTTTATCAGCTGTGC
AGCCTCCTGAGCCTACTTACAACTTGGCTATCATGGATGAATTGGATGAGACCAGGGCATTGTCATGCTTACAGATTGAG
ACAATTGTGTATGCTTGTCAGAGGCATCTTCATCATCTCCCTACTGGTGCTAGAGCAGGTTTCTTCATTGGTGATGGAGC
CGGTGTTGGTAAAGGGCGTACAATTGCTGGATTGATTTGGGAGAATTGGCAACAGGGGAGGCATAAGGCATTGTGGATTT
CCATTGGTTCAGACTTGAAATATGATGCCCGCAGAGATTTGGATGATGTTGGTGCAAAATGTGTGCAAGTGCACGCGTTG
AACAAGCTGCCATATTCTAAGTTAGACTCGAAGGCCACTGGGATCACAGACGGAGTTGTTTTTGTAACTTATAGCAGTTT
AATAGCATCTTCTGAGAAAGGACATTCACGGTTGCGGCAGCTGGTAGAGTGGTGTGGATCTGAGTTCGAAGGTCTTGTGG
TGTTTGATGAGTGCCACAAGGCTAAAAATCTGATTCCTGAGGCAGGAGGTCAGCCCACACGCACTGGTAAATCAGTTCTT
GAGATCCAAGACATGTTACCTGAAGCTCGAGTGGTTTACTGCTCAGCAACTGGTGCATCAGAGCCTCGGAATTTAGGCTA
CATGGTCCGGCTTGGTCTCTGGGGAGACGGAACATCATTTCAGAGTTTTCACCAATTTTTAGGTGCTCTTGAGAAAGGTG
GTGTGGGTGCCCTTGAACTTGTTGCTATGGACATGAAAGCTAGGGGTATGTATGTTTGCCGCACACTAAGTTATAAGGGT
GTTGATTTTGATGTTGTGGAGGCACCTCTAGAGGACAGAATGATGAATATGTATAGAAAGGCAGCTGAATTTTGGGCTGA
GTTGCGTGTTGAGCTCCTATCGGCAAGTGAGTACTATGCAGAAGACAAGGGCAATTCAGCTCACATATGGCGGTTATACT
GGGCCAGCCATCAGCGTTTCTTTAGGCATATGTGTATGTCTGCAAAGGTACCTGCTGTTGTGAGGTTGGTGAAGGAAGCC
TTAGCAGAAGAAAGATGTGTGGTGGTTGGTCTCCAGAGCACTGGTGAAGCTCGAACAGAGGAAGCTATCACAAAATATGG
TCTTGAAATGGAAGACTTTATTTCTGGTCCTAGAGAGTTGCTTCTTAAGCTGGTAGAAGATAACTATCCCTTGCCTCCAA
AACCCGATTGTTCTCAGCAAGGTGAAGAAAAGGTTATGGAGGTCCAGCGTAAGCGACCCGATGTATCCTCAAAAGGACGA
GTTAGGAAACTCACAAAAATGGAAGATAGTGATGATGGAATAGATGCGCACTATCCGTTGGAGTCAGACCATGAATTAAC
AGATTCTGAAGAGGAATTGCATATGTGTCAGATCTGCAATACCGAGGAGGAGAAGAGCCTGTTGCTTCATTGTTCCAATT
GTGCTACAAGTGTTCACCCTGGCTGTCCAATTCCACCATGGACTGGAACGTTGACAGATGATTGGTTATGTTATGCATGC
AAGGAGATAATAGAAGGCTATTTTAAAGAGAGGGATGCTTACATGGCTGAACTATCAAAGAGATATGACAATGCAGTGGA
CAGGAAGTCAAAGATTTTAGAAATCATCCGTGCTTTAGATTTGCCTAATAATCCTCTAGATGATATCATTGATCAGCTAG
GTGGTCCAGACAATGTTGCAGAAATAACTGGAAGGCGTGGTATGCTAATAAGAGCATCAGATGGAAAAGGTGTTGTTTAC
CAGGCACGGAACACGAAAGAAATTGCATTTGACATGATCAATATGCATGAAAAGCAGCTATTCATGGACGGAGAAAAGTT
TATCGCAATAATATCGGAAGCAGGATCAGCTGGTGTTTCCTTACATGCTGATCGAAGGGTTAAAAATCAGAGAAGAAGAG
TACACATAACACTTGAACTTCCATGGAGTGCAGACCGTGCAACCCAGCAGTTTGGGAGAACACATCGTTCTAATCAAACT
TCTGCACCTGTATATAGGATTCTTTTTACCAACCTTGGTGGTGAAAAGCGATTTGCATCAATTGTGGCAAAGCGACTAGA
GTCTCTTGGAGCTTTAACACAAGGAGATCGAAGAGCTGGACCATCACTTAGTGCTTTTAACTATGACAGCAGTTATGGGA
AAAAAGCCCTGACAATGATGTACAGGGGTATAATGGAACAGGATGCATTTCCAGTTGTGCCTTTGGGATGCTCGGAGAAT
CAATCTAGTCTCCAAGAATTCATCACTAGATCAAAAGCTGCGTTAGTGGCAGTTGGAATTGTCAGGGATGCTGTAATCTG
CATTGGAAAACATGGAGCAAAGCTTACTGGTAGAATTGTTGATTCTGATATGCATGATGTGGCCCGTTTCCTCAACCGTA
TTCTGGGATTAGCTCCAAACATCCAGAATGGGTTATTTGATCTCTTCACAAGCATACTCGACGTGGTAATTCAGAATGCA
CGAAGCGAAGGACAGCTTGATTCTGGTATTGTTGATATTAAAGCAAAAAGGGTTGAAATGAAAGAACCGCCGAAGACAGT
TCATGTTGATAGCCTGTCCGGTGCTTCCACGGTGTTGTTCACTCTTACAATTGACCGTGGAGTTACTTGGGAGTCAGCAA
ATGCAATGCTTGAAGAAAGGCAGAAAGATGGTGCATGCTCTTCTAATGACGGGTTTTACGAGTCCAGGAGGGAATGGATG
GGCAGAAGACATTTCATGCTAGCGTTTGAAGGCTCAACGGAAAGAATGTACAGAGTAACTCGCCCTGCCGTCGGGGAAGC
TTCGAAGGAGATGCCTTTGGCTGAACTAGAAGGAAAGTACAAGAAGGTCTCATCGGCTGACAAAACTGGGGAAGGCTGGC
AGGAAGAATACGATGTGTCGTCCAAGCAGTGCATGCATGGGCCCAAGTGCAGACTTGGAAGCGATTGTACTGTGGGCAGA
AGGTTACAAGAGATTAATGTTTTGGGTGGTCTAATACTTCCTGTGTGGGGTGCAGTAGAAAAGGCCCTGAATAAGCAGGC
CCGACAGGCTCACAAGAGGATACGTGTCGTCCGCCTGGAGACAACAGATGACAACCATCGGATTGTTGGGCTTGTCATTC
CAAACGCAGCAGTGGAGTCGGTGTTAGAAGGTCTGCAGTGGGTCCAGGACATCGATGAATGA
ORF - retro_hvul_4 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.72 % |
| Parental protein coverage: | 97.45 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PPTFLPVLPPGMPQPPQLVAVTTTVPIGLPATEPPEEINEVAVDVERDEDEGGTVGETFTDYRPPKLSLG |
| PP...P...P.MP..P.........P...P..EPPEEINEVA.DVER.EDEG.TVGETF.DYRPPKLSLG | |
| Retrocopy | PPPAPPLPMPHMPFLPMMPPPRMPMPPMVPPPEPPEEINEVALDVEREEDEGDTVGETFMDYRPPKLSLG |
| Parental | LPHPDPVVETSSLSAVQPPEPTYELTIMDELDQTKTLSCLQIESIVYASQRHLHHLPTGDRAGFFIGDGA |
| LPHPDPVVETSSLSAVQPPEPTY.L.IMDELD.T..LSCLQIE.IVYA.QRHLHHLPTG.RAGFFIGDGA | |
| Retrocopy | LPHPDPVVETSSLSAVQPPEPTYNLAIMDELDETRALSCLQIETIVYACQRHLHHLPTGARAGFFIGDGA |
| Parental | GVGKGRTIAGLIWENWQQGRHKAVWVSVGSDLKYDARRDLDDVGAKCVQVHPLNKLPYSKLDSKAIGIKN |
| GVGKGRTIAGLIWENWQQGRHKA.W.S.GSDLKYDARRDLDDVGAKCVQVH.LNKLPYSKLDSKA.GI.. | |
| Retrocopy | GVGKGRTIAGLIWENWQQGRHKALWISIGSDLKYDARRDLDDVGAKCVQVHALNKLPYSKLDSKATGITD |
| Parental | GVIFVTYSSLIASSERGRSRLQQLVQWCGHEFDGLIVFDECHKAKNLIPDAGSQPTRTGKAVLEIQEKLP |
| GV.FVTYSSLIASSE.G.SRL.QLV.WCG.EF.GL.VFDECHKAKNLIP.AG.QPTRTGK.VLEIQ..LP | |
| Retrocopy | GVVFVTYSSLIASSEKGHSRLRQLVEWCGSEFEGLVVFDECHKAKNLIPEAGGQPTRTGKSVLEIQDMLP |
| Parental | EARVVYCSATGASEPRNLGYMVRLGLWGDGTSFQDFPQFLGALEKGGVGALELVAMDMKARGMYVCRTLS |
| EARVVYCSATGASEPRNLGYMVRLGLWGDGTSFQ.F.QFLGALEKGGVGALELVAMDMKARGMYVCRTLS | |
| Retrocopy | EARVVYCSATGASEPRNLGYMVRLGLWGDGTSFQSFHQFLGALEKGGVGALELVAMDMKARGMYVCRTLS |
| Parental | YKGADFDTVEAPLEERMMNMYGKAAEFWAELRLELLSAGEISGEEKGISNQIWRLYWASHQRFFRHMCMS |
| YKG.DFD.VEAPLE.RMMNMY.KAAEFWAELR.ELLSA.E...E.KG.S..IWRLYWASHQRFFRHMCMS | |
| Retrocopy | YKGVDFDVVEAPLEDRMMNMYRKAAEFWAELRVELLSASEYYAEDKGNSAHIWRLYWASHQRFFRHMCMS |
| Parental | AKVPAVVKLAKEALAENKCVVIGLQSTGEARTEEAVTKYGVEMEDFVSGPRELLLKLVEENYPLPPKPDS |
| AKVPAVV.L.KEALAE..CVV.GLQSTGEARTEEA.TKYG.EMEDF.SGPRELLLKLVE.NYPLPPKPD. | |
| Retrocopy | AKVPAVVRLVKEALAEERCVVVGLQSTGEARTEEAITKYGLEMEDFISGPRELLLKLVEDNYPLPPKPDC |
| Parental | FQQGEEKVTEIQRKRHSAPDVSFKGRVRKVAKMEEVSDDDSDDYSPSESSDHESTESDEEFHMCQICNSE |
| .QQGEEKV.E.QRKR...PDVS.KGRVRK..KME..SDD..D...P.E.SDHE.T.S.EE.HMCQICN.E | |
| Retrocopy | SQQGEEKVMEVQRKR---PDVSSKGRVRKLTKMED-SDDGIDAHYPLE-SDHELTDSEEELHMCQICNTE |
| Parental | EEKSLLLNCSGCSLRVHPSCLTPPWTGMLTDDWSCYSCKK-IEGQEMEHDANIADFSKRYVSAVESKLKI |
| EEKSLLL.CS.C...VHP.C..PPWTG.LTDDW.CY.CK..IEG...E.DA..A..SKRY..AV..K.KI | |
| Retrocopy | EEKSLLLHCSNCATSVHPGCPIPPWTGTLTDDWLCYACKEIIEGYFKERDAYMAELSKRYDNAVDRKSKI |
| Parental | LDIIRSLDLPNNPLDDIIDQV |
| L.IIR.LDLPNNPLDDIIDQ. | |
| Retrocopy | LEIIRALDLPNNPLDDIIDQL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Hordeum vulgare was not studied using RNA-Seq expression data.
Hordeum vulgare was not studied using ChIP-Seq data.
Hordeum vulgare was not studied using EST data.
Hordeum vulgare was not studied using FANTOM5 data.
retro_hvul_4 was not experimentally validated.
Retrocopy orthology:
Hordeum vulgare 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 | |
|---|---|---|---|
| Hordeum vulgare | MLOC_10099 | 1 retrocopy |
retro_hvul_4 ,
|