Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.033

ChromosomeExonStartStopDirection
chr3H1230454148230453752+
chr3H2230454815230454273+
chr3H3230455710230455549+
chr3H4230456500230456035+
chr3H5230456754230456614+
chr3H6230457777230457669+
chr3H7230458200230458030+
chr3H8230459498230458788+


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
morexETI00.2551560
morexLEA00.1665250
morexEPI000.00000000273961
morexROO000
morexROO2000
morexNOD000.0108881
morexRAC00.1646880.211464
morexINF100.2499380.000250398
morexINF200.1249860.000132577
morexCAR500.3425940.00357321
morexCAR15000
morexLEM00.0000001659220.161669
morexLOD0.1294110.0124440
morexPAL0.000000019577200.00302019
morexSEN0.00080445300



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +3 2e-59 214 109/169 (64%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +3 3e-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 (2700 bp)

>BART1_0-u20322.033 2700 150831_barley_pseudomolecules
AAAAAAACGCATAACATCAAAACAGCCCCGTACGTGAGATTGCGCGTCAAAAAACCCTAT
CGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGGATC
CCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCC
CCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCGTCCCCGACCGCG
GCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTC
GCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGCCATGGCGTCGTC
CTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTCGACGTGGGCACC
TCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCAGCAGGCC
CGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCCTTGTGAATTGTG
AGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGTGTGCCTATGTTGTGTTTT
GACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGCCTGTTCG
ATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTGCTGTCGC
AGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGGTCGGGGG
AGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCGTGCTCT
GCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCGTCGGTTG
ATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAAAAACCAAAGAATGGCCGATG
ATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAGGCTCTAA
TCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTTTTCACTG
AAGCAGAAGATCAGCTAATATGGTTCAACTTGATATTATGCCAGGCGAGAGACACATAGA
GTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAG
GATGGAGCTGACACGCTGTGACGCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGA
TTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTTTAT
CGTTGCCGGATCAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTG
AAAGAGAATTTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGAATCATGT
GCAAGCCGTGAGATTTCGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAATATGCGTC
GGAGACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAAGAATATG
ATCAGCATGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAG
CTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGCCAATGCAT
CGTTAGGCGAACATCTTTCTATTTTGCAGATGGTTATACGTTTGAAACATCAACTGGCCT
GTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCATTTGAGATAGTTGTTGGAT
TGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAAGAGC
AACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAAGGGCAT
CCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGACTGAGGCAGCCGATGTGAAC
GAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAAGGTT
AGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAGGGCATGATCTTGGGACGTCC
GGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTGAAGACACTCAAAATGGTGGA
ACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAGCCTG
CACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTTCCAC
TCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAGGTAG
CAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTTGTCT
TCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCTGCACA
TTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGTCTAGA
AATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTGTATGT
GATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGGAAAAGTTTTTGGTCAGCCGG
CGGATCTGTCTGTGTGCACATCAATCGCCTTTCTGACCATCGGATCTTTTATAATCAGAC



Protein Sequence ( aa)

>BART1_0-u20322.033  150831_barley_pseudomolecules