Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u54453.013

ChromosomeExonStartStopDirection
chr7H1514441144514440920-
chr7H2514442287514442135-
chr7H3514442474514442367-
chr7H4514442603514442556-
chr7H5514443079514442719-
chr7H6514443422514443298-
chr7H7514443632514443512-
chr7H8514444645514444470-


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
morexEMB19.6368.091389.53335
morexETI14.754411.04897.0783
morexLEA2.620221.824751.46044
morexEPI10.682312.280112.918
morexROO2.606112.634612.0418
morexROO214.824818.802317.0528
morexNOD5.360837.772944.31508
morexRAC21.696917.804920.3874
morexINF12.891581.906152.19581
morexINF21.21751.630670
morexCAR58.151875.907319.30676
morexCAR152.491982.917082.56742
morexLEM7.866875.074217.84772
morexLOD16.585320.310416.6516
morexPAL12.643912.843910.9777
morexSEN8.58417.352969.62088



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g09250.2 +1 5e-153 355 174/189 (92%) protein|glyoxalase family protein, putative, expressed
TAIR PP10 AT1G11840 @ ARAPORT
AT1G11840.6 @ TAIR		 +1 2e-120 291 140/193 (73%) Symbols: GLX1 | glyoxalase I homolog | chr1:3995928-3997518 FORWARD LENGTH=322
BRACH PP3 Bradi3g14960.1.p +1 8e-125 364 178/200 (89%) pacid=32813745 transcript=Bradi3g14960.1 locus=Bradi3g14960 ID=Bradi3g14960.1.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 (1317 bp)

>BART1_0-u54453.013 1317 150831_barley_pseudomolecules
CACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTTGGAAGCCT
CTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTCCGGGGTGA
GCATCCCCAAATCCATCTCCTTCGTCCTCTCTTCCGCTTGCTTCCTTTACGCGCCGGGAT
GGCTACCGGTAGCGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGA
CAAAAAGAGGATGCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTG
TTACACAGAATGCTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTA
CACCAATGCGTTTCTTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGCTGACTTA
CAATTATGGTGTTGACAAGTACGACATTGGAGCGGGCTTTGGACATTTTGCCATCGCAAA
TGAGGATGTATGTATTGTTTACCTGCAACATCTTACCCTTTATGTTACAGACCCTTGGGC
TTGTTTGATGTCATGGATGCAATGCAGGTGTACAAGCTGTCTGAGACAATTAAATCATCT
GATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTCCACTGTGATTGCC
TTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGGTCCGACGCCTGAG
CCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTATCATGTTCTACGAG
AAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTATAAGTACACCATT
GCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTGGAGTTGACATACAACTAT
GGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTTGCTATTGGCACTGACGAT
GTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAGGTGGAAAGATTCTA
AGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACCTCTTTCCTTGACCCAGAT
GGCTGGAAAGTGGTTCTGGTGGACTACGCAGACTTCCTCAAGGAGCTGCACTGAAGATGA
GCAGGCTCAGATGTTAGTGTCGTGAGGAGGAACCGTATGTAGCAATGGTCTGTGTGATGT
AATAAAACAAACCTCATGTAGCAAATGGTCTGTGTGCGATGTAATAAAAAGGCAGCCTCT
TCCGCTCGACGAATAAAAATAAAAGCAACTACCGCATGCCCATGCCGTCATTNNNNN



Protein Sequence (214 aa)

>BART1_0-u54453.013 214 150831_barley_pseudomolecules
MYCLPATSYPLCYRPLGLFDVMDAMQVYKLSETIKSSDCCKITREPGPVKGGSTVIAFAQ
DPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMKLLRKKDVPQYKYTIAMM
GYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAEAVELVTKELGGKILRQP
GPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH