Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.065

ChromosomeExonStartStopDirection
chr3H1230454148230453784+
chr3H2230454412230454273+
chr3H3230454815230454481+
chr3H4230455917230455544+
chr3H5230456504230456035+
chr3H6230456754230456614+
chr3H7230457777230457660+
chr3H8230458200230458030+
chr3H9230459509230458788+


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
morexEMB0.000003038360.00000001879540.558645
morexETI000
morexLEA000.0000504028
morexEPI0.0234270.000000834720.180462
morexROO00.2970550.0168014
morexROO20.0000081566600.000000444163
morexNOD00.000000005041070
morexRAC000.0000000964004
morexINF10.155290.1399750.0000321789
morexINF20.01078820.0002137972.36842
morexCAR52.7730402.72981
morexCAR150.2447532.693550.00709711
morexLEM000
morexLOD000
morexPAL00.00000004672950
morexSEN0.0000005341260.1134560



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +2 2e-54 144 83/152 (55%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +2 1e-62 165 92/156 (59%) pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (2836 bp)

>BART1_0-u20322.065 2836 150831_barley_pseudomolecules
CGTGAGATTGCGCGTCAAAAAACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCTA
TGCCGCCGTCATCATCGCCGAGGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCAT
GCCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTG
CGGCAGGACCGCCTCGTCCCCGACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCC
TCACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGG
CGGCTCGAACCATCGCCATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCC
CCATGATCAGTGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGAC
GCAGATGAAGCGCCAAATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCA
TCATCTACGGAATTCCTTGTGAATTGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAA
GCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGA
GAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAA
CCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGC
CGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGAT
TATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAA
TGCAGAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTAT
GATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCT
GAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTAATAATAGAAT
ATATATTGGCCAATTGAGATGCTTTTTAATGCATATTGATGTTGAACTTGAAAATGCTTG
TTGGCTAGCACATATTCTAGAAGGACTTAGTAGTAGACTATTCTTTAATACTATGTTTCA
TCGCCAATTTTGCATGTTCGATGTGGCACACGTGCGGCATGTTCGATGTGGCCGCCAAGG
CGGAGGTGGCGTTGGTTCAACTTGATATTATGCCAGGCGAGAGACACATAGAGTTAGGGA
ACGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGC
TGACACGCTGTGACGCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCA
TCTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCG
GATCAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAA
TTTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCG
TGAGATTTCGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGG
CTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAAGAATATGATCAGCAT
GTTTGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCG
TGCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGCCAATGCATCGTT
AGGCGAACATCTTTCTATTTTGCAGCAAGTGCAGATGGTTATACGTTTGAAACATCAACT
GGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCATTTGAGATAGTTGT
TGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAA
AGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAAG
GGCATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGACTGAGGCAGCCGATG
TGAACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACA
AGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAGGGCATGATCTTGGGA
CGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTGAAGACACTCAAAATG
GTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATA
GCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTT
TCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCA
GGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGT
TGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCT
GCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGT
CTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTG
TATGTGATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGGAAAAGTTTTTGGTCA
GCCGGCGGATCTGTCTGTGTGCACATCAATCGCCTTTCTGACCATCGGATCTTTTATAAT
CAGACCACTTTAAAGC



Protein Sequence ( aa)

>BART1_0-u20322.065  150831_barley_pseudomolecules