Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.022

ChromosomeExonStartStopDirection
chr6H1180782519180781937-
chr6H2180782974180782908-
chr6H3180783205180783085-
chr6H4180783565180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786860-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180788070180788009-
chr6H13180789168180789050-


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
morexEMB5.002954.670240.0000612926
morexETI4.098339.288221.88033
morexLEA9.847130.8766271.04357
morexEPI5.269461.544174.57117
morexROO5.605410.00004636790
morexROO20.000009802854.080593.09652
morexNOD0.000007026289.573628.46365
morexRAC18.34282.303764.46939
morexINF11.687330.03688296.82243
morexINF20.0003352555.351230.707813
morexCAR501.134450
morexCAR150.8470510.0000000402550.00179219
morexLEM9.078015.113270.360164
morexLOD0.2724179.69056.34914
morexPAL2.918540.07401181.82631
morexSEN2.757180.8916794.80287



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +3 0.0 762 507/749 (68%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +3 8e-90 297 219/553 (40%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +3 0.0 933 594/719 (83%) 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 (2624 bp)

>BART1_0-u44239.022 2624 150831_barley_pseudomolecules
AGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGAGAAGAACGAGCGGG
TAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAACTGCAACAATTTGG
GACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCAGTGGAGCAC
ACCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAAATTTACTGCACAAGAAG
TCACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATTTTTCAAGGAATGGG
ATTCTCAGCGCAATCCATACCCTGACAGCAGTAATACGGACAAATTGAGGAATTTCATCA
AATATGTTTACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGACCACCGAGGG
GAAAGGACGATAAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATCGGGGTGGTT
CAAGAAGTCCACCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTGGACGGAGTG
ATGACAGAAATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACCAGAATGATT
ATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAACAACTCCAG
TTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTGGGTCTCCAA
ATTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGAGGGAGATAT
TGGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATGTAGCCAGAC
CGATTGACCCTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTCAGGCACAGA
GGACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGACGAAGGCAG
TAACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCATCTGCCCTGC
CATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTATTAACACAA
CAGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCGGCGGTGATT
GGGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCAGCACTGTAA
ATCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCTGAAACACCCTCTGCCTCCAGTA
CATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAATGGAGGACAGTCATCCATGATAG
ATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTCAGGCAATCAGGCCTCAA
CAGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCCCTATGGGTG
GTCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAGAAGCAACGT
CTTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCTTTACTTCAC
TTTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGTCTGGAATGG
GATTTGGCATGCAGTATCCTGCCGGAATGGGAATGCAGTCATATCCTCAGGCAGCATTTT
CTCAACCTACATATCAACAGCCTACATATCAGCAACCTATGTATCAGCAACCTACATACC
AACAACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATCCCCAACCTGCGAAAG
CTTCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAGCTCACATGTCCCTAT
CTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAGTTGGTAACTCTAGTT
TTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTGTACATCAAAACCATT
ACATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTAATGGCATGCTTCCAA
GGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAACAAGCTGCCCCTAGGT
ACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAAATCCTTTTGGGTAAA
AAAGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTATCTTATGTATCTTCA
GACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCACAAAGCCCTGGAGAA
AAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCTCCGTGTAACTTGGTC
TGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGTTCGGTGCTTCTAGCC
CCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCCTCCGATGTATATTCA
CAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAGCGGCCCTATCTGATA
GTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCAATTTTAATGTTTATT
GCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGT



Protein Sequence (718 aa)

>BART1_0-u44239.022 718 150831_barley_pseudomolecules
QGLRRAMASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAH
REFTHRVKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIK
YVYVERRYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSD
DRNSRHSYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPN
YQREANGSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQR
TATASSIGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTT
APQHVLEQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASST
SAFSTSVDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGG
LPSLLPSNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMG
FGMQYPAGMGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKA
SNPFDLGNEAAPIQAHMSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHY
MMQHVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG