Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.019

ChromosomeExonStartStopDirection
chr6H1180782519180781911-
chr6H2180782974180782908-
chr6H3180783208180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786172180785988-
chr6H7180786802180786233-


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
morexEMB13.739603.28572
morexETI0.3259280.6328692.59203
morexLEA000
morexEPI5.629995.040873.89154
morexROO1.380660.3359310
morexROO23.307031.645431.5497
morexNOD9.4117011.9191
morexRAC1.12870.7629782.16924
morexINF10.6821770.0001914780
morexINF20.84087601.35743
morexCAR500.3770770.518873
morexCAR150.25514600
morexLEM00.5262360.377125
morexLOD1.431855.709190.693614
morexPAL1.7635200
morexSEN00.6062110.662163



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +3 2e-81 234 165/265 (62%) protein|GTPase-activating protein, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi3g07910.1.p +3 1e-113 296 190/265 (72%) pacid=32814567 transcript=Bradi3g07910.1 locus=Bradi3g07910 ID=Bradi3g07910.1.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 (1870 bp)

>BART1_0-u44239.019 1870 150831_barley_pseudomolecules
CTTGAAATTTAGCATATTTTTGTGCAAATATTCTTTCTAAGCTGAGAGTTTGAGGCAAAA
TTATAACTGTTTTGTCTTACATATTTCATACTGCAGAGGACAGCTACTGCCAGCAGCATT
GGTTCTTCCGAGGGGATTTCGGAACAGACGAAGGCAGTAACTCCAGTCAGTTTAATTGAT
TTTGGTGCAGATCCCGAACCTACTGCATCTGCCCTGCCATCACAGACAGCCCCTACACCC
CAGCAGCAGTCAGTTAATGCACAGCCTATTAACACAACAGCGCCACAACATGTTCTTGAA
CAAGGCAGAAGTGCTCCATCAGTGAGCGGCGGTGATTGGGCATCTTTTGATGCTTTTGGC
CAGCAACAACAAACACCACAATCAGGCAGCACTGTAAATCCGCTTGAGTCTGTGCTTGCA
CAACTATCATTCTCTGAAACACCCTCTGCCTCCAGTACATCAGCCTTTTCAACTTCTGTT
GATCAGCAAGCAAATGGAGGACAGTCATCCATGATAGATCCATCACATTCTTCATTATTT
GGTCCACCCGTTGGAATCTCAGGCAATCAGAAACTGTGTTATAGGCCTCAACAGGAATGC
CCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCCCTATGGGTGGTCTTCCAT
CTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAGAAGCAACGTCTTCTCATG
ACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCTTTACTTCACTTTATCCAT
CAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGTCTGGAATGGGATTTGGCA
TGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAGTCATATCCTCAGGCAGCATTTTCTC
AACCTACATATCAACAGCCTACATATCAGCAACCTATGTATCAGCAACCTACATACCAAC
AACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATCCCCAACCTGCGAAAGCTT
CAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAGCTCACATGCAGTCCCTAT
CTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAGTTGGTAACTCTAGTT
TTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTGTACATCAAAACCATT
ACATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTAATGGCATGCTTCCAA
GGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAACAAGCTGCCCCTAGGT
ACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAAATCCTTTTGGGTAAA
AAAGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTATCTTATGTATCTTCA
GACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCACAAAGCCCTGGAGAA
AAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCTCCGTGTAACTTGGTC
TGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGTTCGGTGCTTCTAGCC
CCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCCTCCGATGTATATTCA
CAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAGCGGCCCTATCTGATA
GTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCAATTTTAATGTTTATT
GCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGTTTTGGTCTCACGCTAT
TGCATTACGG



Protein Sequence (260 aa)

>BART1_0-u44239.019 260 150831_barley_pseudomolecules
MPVQGSAVHQSAVAAPMGGLPSLLPSNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLY
PSATPAMPGWQRAPQSGMGFGMQYPAGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTY
QQPTYQQPVYQQNAYPQPAKASNPFDLGNEAAPIQAHMQSLSGPLGASAGAANPTLVGNS
SFGVPPQQPQQMYQPPVHQNHYMMQHVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAP
RYSQPSTPPSYGAVGGNPFG