Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20322.136

ChromosomeExonStartStopDirection
chr3H1230454148230453833+
chr3H2230454815230454278+
chr3H3230455710230455549+
chr3H4230456521230456035+
chr3H5230456754230456614+
chr3H6230457777230457660+
chr3H7230458200230458030+
chr3H8230459448230458788+


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
morexETI1.681260.2388740
morexLEA0.8170260.01146310.00000000156054
morexEPI00.1538750.00000527783
morexROO000
morexROO200.3286480
morexNOD0.2264450.000009132240
morexRAC1.317110.9713520.384875
morexINF10.001417100.00000650304
morexINF200.3184380.000749439
morexCAR51.096760.110850.0223585
morexCAR1500.00000001282040
morexLEM0.0002323061.398570.538364
morexLOD0.000000000264220.00552620
morexPAL0.765761.462510.544766
morexSEN0.000000087376900.00000018356



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19480.1 +1 3e-59 214 109/169 (64%) protein|SET domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g64460.4.p +1 1e-66 238 121/168 (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 (2594 bp)

>BART1_0-u20322.136 2594 150831_barley_pseudomolecules
TCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGGATCCCCAGTCCCCGACCGCGGCCA
CCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCCCCGATCGCGGTCGCCCCGCTC
CCTCCAGATTGCGGCAGGACCGCCTCGTCCCCGACCGCGGCCGCGTCACCCTGTCAAAGA
ACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTCGCGTCGAGGAGAAGTAGGTGG
TCGGCCTACGGCGGCTCGAACCATCGCCATGGCGTCGTCCTCCTCCAAAGCCTCCTCCCA
CCGGGATGGCCCCATGTGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAA
GCTGACGCAGATGAAGCGCCAAATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCA
TCGGCATCATCTACGGAATTCCTTGTGAATTGTGAGTTTCGGGTCACTCAATGTGATCCT
CCTGTTTTGAGCTTGTGTGCCTATGTTGTGTTTTGACAGGAGAAGCTGGAGGCAAACAGG
AGGGCGTTGCAGAAGCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCG
TTGAGGGGCTCGGAGAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGG
ATCGTTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAG
GAGAACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACC
ATCGTTTTGTAGATTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGG
ATCTTCCTGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGA
ATTTACTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATT
GCACAACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTC
AACTTGATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCC
GAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGTGACGCCA
CAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAG
GCTGGTGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCACTCGAGGA
GGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTT
CTACATGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGGAACCACT
AGATTGTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCAACAT
GAACCGGAGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTGAGATGTTCTTC
CATGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGT
GCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGCCAATGCATCGTTA
GGCGAACATCTTTCTATTTTGCAGCAAGTGCAGATGGTTATACGTTTGAAACATCAACTG
GCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCATTTGAGATAGTTGTT
GGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAA
GAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAAGG
GCATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGACTGAGGCAGCCGATGT
GAACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAA
GGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAGGGCATGATCTTGGGAC
GTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTGAAGACACTCAAAATGG
TGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAG
CCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTT
CCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAG
GTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTT
GTCTTCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCTG
CACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGTC
TAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTGT
ATGTGATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGGAAAAGTTTTTGGTCAG
CCGGCGGATCTGTC



Protein Sequence ( aa)

>BART1_0-u20322.136  150831_barley_pseudomolecules