RetrogeneDB ID: retro_taes_86

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3D:79718678..79721444(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_3DL_DB2EC12F7
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2DS_D8DC6D0D3
• Aliases: None
• Description: None

Sequence

>retro_taes_86
ATGCTGACCGCACATGGTATGGCTGTGAAGAACAGAGCAGTATATTCAATGCCGGTAGTTATCTTGGAGATGATGCTTCC
TTTCAGAATAAGAAGGCAAAATTGCTCCAAGAAGTTGACTCGCCAAGATGGAAGCCTGATGACTCTTGCTCAGAGCAAAA
GGTTATCTCAGGTAACCGCTGAGAATGCTCGGTGGGAGGACAGGCAGTTGTTCAGATCAGGAGCTGTTAGGAGAACAGAG
GTGCAGACGGAGTTCGACGATGAGGACGAGCGTAAGGTGATACTACTTGTTCATGACACAAAACCCCCATTCCTTGATGG
ACGAGTTGTGTTCACAACGCAAGCAGAGCCTGTGATGCCACTCAAGGACCCGACATCTGACATGGTTATCATTGCGCGCA
AAGGTTCTCTTTTGGTTAGGGAAATTCGTGAAAAGCAGAGTATGAACAAGTCAAGGCAACGCTTCTGGGAGCTTGCTGGA
TCTATGCTAGGACATATTTTGGGTGTTGGGAAAACAACCCAACAGGCTGATGCTGATACTGTGCTTGTTGGTGACCAAGG
TGATGTTGACTTCAAAGAGAAGCTGAAATTTTCACAACACTTGAAGGAAAAGGCAGAAGCAGTCAGCGATTTTGCAAAAT
CAAAATCTCTTTCTGAACAGAGGCAATACCTTCCCATATACACTGTCAGGGATGACCTGCTCGGAGTTGTGCGGGAAAAT
CAAGTGGTTGTGGTTGTTGGTGAAACTGGTTCTGGGAAGACTACCCAGCTGACTCAATATCTGCATGAGGATGGATATAC
CAGAACTGGCCTTGTTGGCTGCACTCAACCAAGACGTGTAGCTGCCATGAGTGTTGCTCGGCGTGTCAGTGACGAAATGG
AAACCGTGCTTGGAGAAGAAGTTGGATATGCTATTCGGTTCGAGGATGTCACGTGCCATAAGACAAAAATAAAGTACATG
ACAGATGGAGTGCTTCTCCGTGAAACCTTGAAGGATGCTGACCTGGACAAATATCGGGTTATCATCATGGATGAAGCACA
CGAGAGATCAGTGGACACTGATGTATTATTTGGTATATTGAAGAAGGTTGCTGCACGGCGACGGGATTTTAAGCTAATTG
TCACATCTGCAACACTAAATGCAGACAAATTCTCAAAATTCTTTGGTGGTGCGCCTGTATTTCACATACCTGGAAGGACA
TTTCCAGTTAATATCTTGTACAGCAAAACACCATGTGAAGATTATGTGGAAGCGGCAGTGAAGCAGGCCATCACAATCCA
CATAACGAGTGGCCCTGGCGACATTCTCATATTCATGACTGGGCAGGAAGAAATCGAGACTGCTTGCTATGCGCTTGCTG
AGCGCATGGAGCAGCTAATATCATCATCCACCAAGGCTGCAGGGAAGCTCTCAATCTTGCCCGTCTATTCGCAGTTGCCT
GCTGACTTGCAGGCCAAGATCTTTCAGAAGGCAGGGGAGGGCACTCGCAAATGCATTGTTGCTACCAACATCGCTGAGAC
ATCCCTGACAGTAGATGGTATCTTGTATGTCATCGATACTGGGTATGGAAAGATGAAGGTATACAATCCACGGATGGGCA
TGGACGCTCTTCAGGTTTTTCCATGTAGTCGAGCAGCCGCAGACCAGCGCGCAGGGCGTGCAGGAAGAACTGGCCCCGGC
ACATGCTACAGGCTGTTCACGGAATCCGCTTACCAGGATGAAATGCTCCCTAACCCCGTGCCAGAGATCCAAAGGACCAA
CCTTGCGAACGTGGTTCTCTTACTGAAATCCCTCGAAGTCGAAAATTTGCTTCATTTTGACTTCATGGACCCACCTCCCC
AGGAGAATATCCTCAACTCCATGTACCAGCTCTGGCTGTTGGGTGCCTTGAACAATGCTGGCGGCCTTGCAAATCTAGGC
TGGAAGATGGTGGAGTTCCCACTGGACCCAACCCTGGCAAAGATGCTTCTCATGGGTAAGGAGTTGGGGTGCGTTGATGA
AGTACTAACAATTGTATCGATGCTCTCAGTGCCATCAGTATTCTTCCGGCCAAAAGATCGAGAAGAGGAGAGTGACACTG
CAAGGGAGAAGTTTTTTGTACCGGAGTCTGACCATCTAACACTCCTCAATGTATACCTGCTCTGGGAGTCGAACGAATAT
AGTGTAGACTGGTGCAATGCTCACTTCCTCCATGTCAAGGGTCTACAAAAGGCTCGGGAAGTGAGATCTCAATTGGTGGA
CATACTGAACACCCTGAAGATCCCGCAGATATCGCGCCATAGGGAATGGGACTTGGTGAGGAAGGCCATCTGCTCAGCGT
ACTTCCAGAACTCTGCAAGGTTGAAGGGTGTTGGAGAGTACGTCAACTGCCGTAATGGGGTGCCTTGCCACCTGCATCCC
AGCAGCGCCCTCTACGGTCTCGGCTACACCCCTGACTACATCGTCTACCACGAGCTTGTCCTGACAACCAAGGACTATAT
GCAGTGTGTCAGTGCAGTTGACCCGCAGTGGCTGGTAGAGCTGGGGCCCATGTTCTTCTCTGTGAAGGAGGGTGACACCT
CCTTCCTTGACCGCAGGAGGTGGCATAATGAGGAGAAGACGGCCATGGAAGAGGAGATGGAGAAGCTGAGGCAGGAGCAA
GATGAGGCGGCATGCAGAGTGAAGGGGAGGGAGGAGAAGAGGGGCAAGCCGCAGCAGCAGGTTGCTATGCCAGGCCTGAA
GAAAGGTTTGGCGTATCTTAGGCCCAGAAGGAGAATGGGTTTGTAG

Alignment

ORF - retro_taes_86 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.15 %
• Parental protein coverage: 63.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YKKKEAQLPKKLTRKDGSLMTLSQSKKLSQMTADNAQWEDRQLLRSGAVRGTEVQTEFDDEDERKVILLV
          .........KKLTR.DGSLMTL.QSK.LSQ.TA.NA.WEDRQL.RSGAVR.TEVQTEFDDEDERKVILLV
Retrocopy FRIRRQNCSKKLTRQDGSLMTLAQSKRLSQVTAENARWEDRQLFRSGAVRRTEVQTEFDDEDERKVILLV

Parental  HDTKPPFLDGRVVYTKQAEPVMPLKDPTSDMAIIARKGSVLVREIREKQSQNKSRQRFWELAGSNLGNIL
          HDTKPPFLDGRVV.T.QAEPVMPLKDPTSDM.IIARKGS.LVREIREKQS.NKSRQRFWELAGS.LG.IL
Retrocopy HDTKPPFLDGRVVFTTQAEPVMPLKDPTSDMVIIARKGSLLVREIREKQSMNKSRQRFWELAGSMLGHIL

Parental  GVEKTSEQVDADTAVVGDQGEIDFKEEAKFSQHLKEKAEAVSDFAKSKSLSQQRQYLPIYTVRDDLLQVV
          GV.KT..Q.DADT..VGDQG..DFKE..KFSQHLKEKAEAVSDFAKSKSLS.QRQYLPIYTVRDDLL.VV
Retrocopy GVGKTTQQADADTVLVGDQGDVDFKEKLKFSQHLKEKAEAVSDFAKSKSLSEQRQYLPIYTVRDDLLGVV

Parental  RENQVVVVVGETGSGKTTQLTQYLHEDGYTTTGVVGCTQPRRVAAMSVAKRVSEEMETELGDKVGYAIRF
          RENQVVVVVGETGSGKTTQLTQYLHEDGYT.TG.VGCTQPRRVAAMSVA.RVS.EMET.LG..VGYAIRF
Retrocopy RENQVVVVVGETGSGKTTQLTQYLHEDGYTRTGLVGCTQPRRVAAMSVARRVSDEMETVLGEEVGYAIRF

Parental  EDVTCSSTIIKYMTDGVLLRETLKDADLDKYRVIVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSA
          EDVTC..T.IKYMTDGVLLRETLKDADLDKYRVI.MDEAHERS..TDVLFGILKKV.ARRRDFKLIVTSA
Retrocopy EDVTCHKTKIKYMTDGVLLRETLKDADLDKYRVIIMDEAHERSVDTDVLFGILKKVAARRRDFKLIVTSA

Parental  TLNADKFSKFFGGVPVFNIPGRTFPVNILFSKTPCEDYVEAAVKQAMTIHITSGPGDILIFMTGQEEIEA
          TLNADKFSKFFGG.PVF.IPGRTFPVNIL.SKTPCEDYVEAAVKQA.TIHITSGPGDILIFMTGQEEIE.
Retrocopy TLNADKFSKFFGGAPVFHIPGRTFPVNILYSKTPCEDYVEAAVKQAITIHITSGPGDILIFMTGQEEIET

Parental  TCYALAERMEQLISSSTKNVPKLSILPIYSQLPADLQAKIFQKAEEGTRKCIVATNIAETSLTVDGIFYV
          .CYALAERMEQLISSSTK...KLSILP.YSQLPADLQAKIFQKA.EGTRKCIVATNIAETSLTVDGI.YV
Retrocopy ACYALAERMEQLISSSTKAAGKLSILPVYSQLPADLQAKIFQKAGEGTRKCIVATNIAETSLTVDGILYV

Parental  IDTGYGKMKVYNPRMGMDALQVFPCSRAAADQRAGRAGRTGPGTCYRLFTESAYQNEMLPNPVPEIQRTN
          IDTGYGKMKVYNPRMGMDALQVFPCSRAAADQRAGRAGRTGPGTCYRLFTESAYQ.EMLPNPVPEIQRTN
Retrocopy IDTGYGKMKVYNPRMGMDALQVFPCSRAAADQRAGRAGRTGPGTCYRLFTESAYQDEMLPNPVPEIQRTN

Parental  LGNVVLLLKSLKVENLLDFDFMDPPPQENILNSMYQLWVLGALNNVGGLTEIGWKMVEFPLDPTLAKMLL
          L.NVVLLLKSL.VENLL.FDFMDPPPQENILNSMYQLW.LGALNN.GGL...GWKMVEFPLDPTLAKMLL
Retrocopy LANVVLLLKSLEVENLLHFDFMDPPPQENILNSMYQLWLLGALNNAGGLANLGWKMVEFPLDPTLAKMLL

Parental  MGEKLDCLDEVLTVVSMLSVPSVFFRPKDRAEESDAAREKFFVPESDHLTLLNVYLQWKSNQYRGDWCND
          MG..L.C.DEVLT.VSMLSVPSVFFRPKDR.EESD.AREKFFVPESDHLTLLNVYL.W.SN.Y..DWCN.
Retrocopy MGKELGCVDEVLTIVSMLSVPSVFFRPKDREEESDTAREKFFVPESDHLTLLNVYLLWESNEYSVDWCNA

Parental  HFLHVKGLRKAREVRSQLLDILKALKIPLTSCHMEWDVVRKAICSAYFHNSARLKGIGEYVNCRNGMPCH
          HFLHVKGL.KAREVRSQL.DIL..LKIP..S.H.EWD.VRKAICSAYF.NSARLKG.GEYVNCRNG.PCH
Retrocopy HFLHVKGLQKAREVRSQLVDILNTLKIPQISRHREWDLVRKAICSAYFQNSARLKGVGEYVNCRNGVPCH

Parental  LHPSSALYGLGYTPDYVVYHELVLTTKEYMQCVSAVDPQWLAELGPMFFSVKDTDTSLLDHKKRQKEEKT
          LHPSSALYGLGYTPDY.VYHELVLTTK.YMQCVSAVDPQWL.ELGPMFFSVK..DTS.LD......EEKT
Retrocopy LHPSSALYGLGYTPDYIVYHELVLTTKDYMQCVSAVDPQWLVELGPMFFSVKEGDTSFLDRRRWHNEEKT

Parental  AMEEEMEKLRQEQAEAALLEKERERRKRAKQQQQISMPGLKKGSTYLRP-KKMGL
          AMEEEMEKLRQEQ.EAA...K.RE..KR.K.QQQ..MPGLKKG..YLRP...MGL
Retrocopy AMEEEMEKLRQEQDEAACRVKGRE-EKRGKPQQQVAMPGLKKGLAYLRPRRRMGL

Legend:

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

Expression

RNA-Seq

Triticum aestivum was not studied using RNA-Seq expression data.

ChIP-Seq

Triticum aestivum was not studied using ChIP-Seq data.

EST

Triticum aestivum was not studied using EST data.

TSS

Triticum aestivum was not studied using FANTOM5 data.

Lab

retro_taes_86 was not experimentally validated.

Homology

Retrocopy orthology:

Triticum aestivum 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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Medicago truncatula	MTR_2g098440	1 retrocopy	retro_mtru_32,
Triticum aestivum	Traes_2DS_D8DC6D0D3	1 retrocopy	retro_taes_86 ,