Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u36905.007

ChromosomeExonStartStopDirection
chr5H1516498882516498863+
chr5H2516499417516499330+
chr5H3516499628516499542+
chr5H4516500536516499724+
chr5H5516501316516500965+
chr5H6516501625516501544+
chr5H7516502467516502239+
chr5H8516504854516503380+


grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



Salmon TPM Values: sixteensamplesmorex

These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials


SampleTreatmentRep 1Rep 2Rep 3
morexEMB4.217836.14596.89781
morexETI2.655680.7267512.84029
morexLEA9.008831.408583.23701
morexEPI0.9926810.8458290.95071
morexROO0.6378761.58620.418901
morexROO22.787441.539761.49408
morexNOD1.77640.5372252.06794
morexRAC8.776358.9464310.1735
morexINF19.188465.4062310.0829
morexINF27.2171411.630812.7267
morexCAR515.295912.925412.4853
morexCAR152.266022.017121.92704
morexLEM1.795820.6596031.64431
morexLOD3.94243.337633.58848
morexPAL4.826723.064733.64596
morexSEN0.54660.08760370.381021



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os09g28300.1 +3 0.0 613 384/564 (68%) protein|remorin C-terminal domain containing protein, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g49050.1.p +3 0.0 735 448/561 (80%) pacid=32772094 transcript=Bradi2g49050.1 locus=Bradi2g49050 ID=Bradi2g49050.1.v3.1 annot-version=v3.1




Barley PseudoMolecules GBrowse

Click here to see more tracks within GBrowse -->



grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



CDS Sequence (3146 bp)

>BART1_0-u36905.007 3146 150831_barley_pseudomolecules
GCTCCTTCGGCTGCGACTCGCCTTTGGCCGGATTCGTGCGCGCGGATGGCGACATGGAAG
GCACAGATCTGGAGACAGACGGGCTGGCCGCCACTTCCTCCTCCAGCGCGTTCACGGAGC
CGCACGACGACGAGGAGGCGCAGTCGCGGCAAGAACCGGCCAAGAGTCCGGCGGGCACTG
CCACTGCCATCCGAGAATGCCAGAGCCAGCGGCGGTGCCGGACAGACGCGGTTTACCTGC
ACGGTAGGAAGGGGCTCAAGCAGCGGCCGGCCTCGCTCGACTTCGGCAGCGCCGGGTTCA
GCAGCGGGACTCCGTTTTCTCCGGGCTTTGTGGTGGGAGGCGCGGGGTTTGTGAGCAAGG
GACTTGTGTCATCACAGATCAGCTCAGGGGTGTTTCCGAGTCCCGGCACGCCGAGCTACC
CGCGGCGGCACCGGCCATCGGCCTTGGGGTACCAGAAGGGGTGGAGCTCGGAGAGAGTGC
CCCTTCCTTCCAAAGGTAACAACACTAGGAGGTACCCAGGCAGCAGCATGGCATTTCCTC
TCAACAACAGGAGGACACTGCCCTCAAAATGGGAGGATGCAGAGAGGTGGATCTTCAGTC
CCAAGTCTAACGCCGGCGATGCGCGTGAGAAGACCGCCACATTGCCCCATGCTCGACGGC
CGAAGGCCAAAAGTGGTCCTCTTGGGCCTCCTGGAAGACTTGGTGGACAGTATTCATCTG
TATCTTCATCCGTGTCTTTGTTTGACAGTGGGAGAGTTGGGCATTTAGCAGCAAACTCAC
CTTTCTTGGCGGGAGTACTCATACCTGAACATTATGGTGGGGCGAAAAGTAATGTCCGGA
GGTACACGAGTGGAACAGCTGGTGACGAATTTGGTATTGGCATAGTTGGCAGGTCTTCTC
TAGCAGCTATCGGGTCGCCTGCTATCCCGTCTACGACGGTGCGCCGACGACTAGATACTG
CAATTGAGTCATCTGTGTCATTGCCTAGCACTCGAGAATCTGTACAAGGCGAAGAGGCTG
AGTTTGTAGAAGATTCAGCCCCTGTCGCTACCCCTATAATTTCAAGGAAGGATACCGCGA
CTCAAACTAGCCCAGATCTAAGTAGGTCTTCTTCGCCCAGCGCCAGGCCTTCATTTGTTC
GCTCGTTTTCAATGCAACAAGCCAAGGAGGAGAGCTGTTTCTCTGATCTTGAGATCAGGG
ATGTGCAGATGGATGACCGAGTGAGTCTTACTAGATGGTCCAAGAAGCATGTAACACAGG
CCTCTAACAAGAATTCTACAAATATCTTAGAGTGGAACAGAAAAACGGTGGACTCTAAAT
CTTCTTCCTGGGAATCAACTGAAACAAAGTGCACATTAAAGGTTGAGAGAGAAGAAGCAA
AACTTACTGCTTGGGAGAATCTTCAAAAAGCGAAAGCTGAGGCTGCAATTCAGAAGCTAG
TGATGAAACTCGAGAAGAAACGATCATTTTCTCTGGACAGAATTTTGAACACCCTCAGGT
CTGCTCAAAGAAAAGCACAAGGGATGCGTGATGCAGCAACAGCAAGCCAAGATGAACATG
TTTGCAGAAAGGCCAAAAAGACATCACACGTTACAAAGAATGGCCAGATCAGATCTCTGA
GTGGCTGTTTTACTTGCCATGCTTTCTAGTATCATGCAATCCCGCTACTGAGAACGGAGA
GAGCACATCTTATCTCCTCATGCTTTCAAGGAGAAGTGCCTCACATACTGGCATATATCA
ACCCCATATATATTTTATTTTGTTGAGGATATCAACCCGTAAAGAGAGATCTAAAGGATT
GGAGCATCACCAAAGAACTAGCCATGGACAGGGGTGCGTGGAAGCTTGCTATCCATGTGC
CAGAACCATGAGTTGGTCGTAAGATCTTATGAGTTTCATCTCTAGCCTAGCCCAACTTGT
TTGGGACTAAAGGCTTTGTTGTTGTTTGTTTGTTTGTTTGAGGATATCAACCCCATAGTT
CTGATAGCCTGCTTGTGCCAGCCAAACCAACTTCACCTCTGATTTTATCTCCCCTTTCTG
CCACTTCATCTTCCTAATTCTCAATAGCATCAGGAACATAAGGAAGATAATACAATATAT
GCACGTTCCATATGCTTGCCGCTTTTGACTGTGTTGATCATTTAAGAACATAATTATTCA
GAAATGATACGAGGCGGGTTGAGGTAGCATTGTAGCGCTGGTACTTCATGTAACATGCTC
CATAGGCTAACCTGTTCCTACAGCATGTAACATAGGCTAATCACCTCAGGTAGCATTGTA
AACCTGTAAATGTACGGAGCTTGTAAATTGCCTAAGATCTACGTATTACACTGTCGATAA
ATAAGCAGCCACTTCGCCGTCCTTTATTCACGGTCAAATTAGGACCCCCCAAAAAATATA
TACATATCAAGCACCACAAATGCCATGCTTTAGCTCTTGACAACGGGACCTGTTTTTTCC
TTTCTCTTCAGGGATCTGGAGGACCTAGGTTCACTCTTCAGGCCCTTCAGCAGGGAAGTC
CGGGTGAAGTTCAGACAGAGACTCACTCTGTGAGTGAAGAATCCAAACAATCCTCAACTC
ACCCCCGTCGCATTTTCAGAAGAATATGCCGCTTGCGGCCTGAGCAGGGACCATGCGTGC
GCTGGCTCTCACCATATGGCTCTGCTCATCTGCGCAATCTGCCAAGGGGACAAGAGAAAA
TGGAGGCACCGAGGAAAAGGAGCGATGGTGCCTCTGCGTCACCACATGCACCGACCCGGC
AGGCCAGCAGCTAGCACAATGGTAAACAGGTGAAGGCCTCCTTTATCGTTGGCCTTTGCT
GGTCCTGTAGTTGCTTCAGGTGTAGCCCATTTGGGTGGGATTGGATGTACGCCACCATAG
AACATTATTAGTATTATTATTTTGCTGCAATCGTTGCTGCTCTCGTGTCTTTACTTTGAG
CTGTAGGAGATGCTTCCTCAGGAGGGAAAAAAAAGGTGAACCAGATAAGGCGTTTTGCAG
CTTTCCAGCGTTCAGATAGAAAGCAAGCGTCGGGATAGAAAGTGTCCTACGACCACGAAG
TGAGGTTCCTCCCGTGACTTGACCCTCGTGCACCCTCACCCGTAGGCCGAAAGAAAGCAA
CGTTATGCAGGTCCAAACAAAACCGG



Protein Sequence (531 aa)

>BART1_0-u36905.007 531 150831_barley_pseudomolecules
MEGTDLETDGLAATSSSSAFTEPHDDEEAQSRQEPAKSPAGTATAIRECQSQRRCRTDAV
YLHGRKGLKQRPASLDFGSAGFSSGTPFSPGFVVGGAGFVSKGLVSSQISSGVFPSPGTP
SYPRRHRPSALGYQKGWSSERVPLPSKGNNTRRYPGSSMAFPLNNRRTLPSKWEDAERWI
FSPKSNAGDAREKTATLPHARRPKAKSGPLGPPGRLGGQYSSVSSSVSLFDSGRVGHLAA
NSPFLAGVLIPEHYGGAKSNVRRYTSGTAGDEFGIGIVGRSSLAAIGSPAIPSTTVRRRL
DTAIESSVSLPSTRESVQGEEAEFVEDSAPVATPIISRKDTATQTSPDLSRSSSPSARPS
FVRSFSMQQAKEESCFSDLEIRDVQMDDRVSLTRWSKKHVTQASNKNSTNILEWNRKTVD
SKSSSWESTETKCTLKVEREEAKLTAWENLQKAKAEAAIQKLVMKLEKKRSFSLDRILNT
LRSAQRKAQGMRDAATASQDEHVCRKAKKTSHVTKNGQIRSLSGCFTCHAF