Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.015

ChromosomeExonStartStopDirection
chr3H1230454148230453745+
chr3H2230454815230454273+
chr3H3230455710230455549+
chr3H4230456521230456035+
chr3H5230456754230456620+
chr3H6230457777230457660+
chr3H7230458200230458030+
chr3H8230459553230458788+


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
morexEMB000.0000000182262
morexETI0.00000006617130.0000000008497040
morexLEA0.72172900.00000000266105
morexEPI00.00000004183160.0000421907
morexROO000.00000321057
morexROO2000
morexNOD0.0000003552130.339170
morexRAC00.0004279130.0000000140804
morexINF100.000000001326380
morexINF200.00000001108560
morexCAR500.0000005452690.000000000373264
morexCAR1500.00000000278470
morexLEM00.000000003523910.000322499
morexLOD0.0007366191.239690.0574713
morexPAL0.004881470.1008440.000000172537
morexSEN00.00001796140



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +1 2e-59 214 109/169 (64%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +1 4e-67 239 121/168 (72%) 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 (2786 bp)

>BART1_0-u20322.015 2786 150831_barley_pseudomolecules
CGCAAGTAAAAAAACGCATAACATCAAAACAGCCCCGTACGTGAGATTGCGCGTCAAAAA
ACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATCGCCGA
GGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGA
CACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCGTCCCC
GACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGG
CCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGCCATGG
CGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTCGACGT
GGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCA
GCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCCTTGTG
AATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGTGTGCCTATGTT
GTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGC
CTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTG
CTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGG
TCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTC
GTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCG
TCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAAAAACCAAAGAATG
GCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAG
GCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTT
TTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGATATTATGCCAGGCGAGAGAC
ACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTT
GGTCGAGGATGGAGCTGACACGCTGTGACGCCACAGCTATTGAGGCTATCCGTCAAGTGT
GGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTT
GCTTTATCGTTGCCGGATCAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCG
GTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGA
ATCATGTGCAAGCCGTGAGATTTCGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAAT
ATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAA
GAATATGATCAGCATGTTTGTGAGATGTTCTTCCATATTTTCACATGACTGATGCCCAGA
GCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGGAA
CATATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGCAAGTGCAG
ATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTG
AAAAAACTATCATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAG
CTAGAGACAAAAAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGAAT
CTCACATTTATCAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAGAG
AACGGCATGGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGGAA
AAAACAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTC
TATTAACCTAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCA
ACATCAGGTTGAAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTTTC
GCTCCTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCG
GGGCAGCAAGACTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGG
AGGGGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAA
TAGGCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTACAC
CGGATCAGGGGAGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCCTT
CTACTGCCCTTTAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAAGATTTGAAA
GCTCATTTTTATTAACTTGCTGTGTGTATGTGATTGTGAACTACTTCCATATTTTAGAAA
TATTATAAGGGAAAAGTTTTTGGTCAGCCGGCGGATCTGTCTGTGTGCACATCAATCGCC
TTTCTGACCATCGGATCTTTTATAATCAGACCACTTTAAAGCATCTTTTTTTATAGTTTA
AATTTGCAACTGATCCATTGTCGCAA



Protein Sequence ( aa)

>BART1_0-u20322.015  150831_barley_pseudomolecules