Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.023

ChromosomeExonStartStopDirection
chr3H1230454412230453750+
chr3H2230454815230454481+
chr3H3230455710230455544+
chr3H4230456521230456035+
chr3H5230456754230456614+
chr3H6230457777230457660+
chr3H7230458200230458030+
chr3H8230459348230458788+


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
morexEMB00.000000001955580
morexETI000
morexLEA0.000000066099800.0000375224
morexEPI000.0000163638
morexROO000
morexROO20.8660190.00005577060.486419
morexNOD00.3164740.0201959
morexRAC0.000077966200.0534739
morexINF1000
morexINF200.0009086590
morexCAR5000.0000306084
morexCAR15000.806964
morexLEM000
morexLOD0.4945650.004206130
morexPAL00.000000006812130
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +1 1e-54 145 83/152 (55%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +1 1e-62 166 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 (2643 bp)

>BART1_0-u20322.023 2643 150831_barley_pseudomolecules
GTAAAAAAACGCATAACATCAAAACAGCCCCGTACGTGAGATTGCGCGTCAAAAAACCCT
ATCGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGGA
TCCCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGT
CCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCGTCCCCGACCG
CGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCC
TCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGCCATGGCGTCG
TCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGGTATCGTTAGTCGGCCTTCGA
TTCCCCTAGCCGCCCGGTTCCCCGCCTCAATCTCCCTCCCGAATCTAATCTGTTTCGATC
CTTTTTCGTCCCCTGGTTTTATCTCGTGCTCTGCACCGGACAGATCAGTGGCTCGACGTG
GGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCAG
CAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCCTTGTGA
ATTGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGCCTGTTCGAT
GTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTGCTGTCGCAG
CTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGGTCGGGGGAG
AGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCGTGCTCTGC
AGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCGTCGGTTGAT
AAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAATGCAGAAACCAAAGAATGGCCG
ATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAGGCTC
TAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTTTTCA
CTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGATATTATGCCAGGCGAGAGACACAT
AGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTC
GAGGATGGAGCTGACACGCTGTGACGCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCC
GGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTT
TATCGTTGCCGGATCAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTT
TTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGAATCA
TGTGCAAGCCGTGAGATTTCGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAATATGC
GTCGGAGACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAAGAAT
ATGATCAGCATGTTTGTGAGATGTTCTTCCATGTTCAGATTTTCACATGACTGATGCCCA
GAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGG
AACATATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGCAAGTGC
AGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAG
TGAAAAAACTATCATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGC
AGCTAGAGACAAAAAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGA
ATCTCACATTTATCAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAG
AGAACGGCATGGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGG
AAAAAACAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTG
TCTATTAACCTAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATC
CAACATCAGGTTGAAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTT
TCGCTCCTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTT
CGGGGCAGCAAGACTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCT
GGAGGGGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAA
AATAGGCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTAC
ACCGGATCAGGGGAGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCC
TTCTACTGCCCTTTAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAAGATTTGA
AAG



Protein Sequence ( aa)

>BART1_0-u20322.023  150831_barley_pseudomolecules