Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.006

ChromosomeExonStartStopDirection
chr6H1180782519180781772-
chr6H2180782974180782908-
chr6H3180783205180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786860-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180788070180788009-
chr6H13180789166180789050-
chr6H14180789636180789266-


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
morexEMB0.0000025411800
morexETI0.0003907470.000000007592290.00204652
morexLEA000.00000817198
morexEPI00.2501590
morexROO0.0020937600.00000000974277
morexROO20.000000001737780.001078690.0000785419
morexNOD00.0007188350.000000001564
morexRAC0.005081090.0001486430.00332293
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000.0000000117051
morexLEM0.00004759090.000002414420.000286033
morexLOD0.0009082891.511930.906834
morexPAL0.0009327150.0000001335040.0128111
morexSEN00.0001185740.0000759343



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +3 0.0 757 507/751 (68%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +3 2e-88 296 219/553 (40%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +3 0.0 936 597/721 (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 (3164 bp)

>BART1_0-u44239.006 3164 150831_barley_pseudomolecules
CGGGCCCCATAAATCCCCGGCCACATCGCCCCTCTGGATTCTAGACTAGAAAGACCGCCT
CCCTCCCGCGGTCCCGCCGCCCGGCGACCGGCTTCAGCCGGTCCACACCCGCAAGTTGAC
CGCCAGCCGTCGCTCTGCCTTCTTCTCCTCTGCCGGTAAATAAAACCCCACGACGAGGGA
AAAACTTTTTTTCTACTAACACGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACAAA
AGAGGGGACCCTTTCCGTTGGTCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCGCA
CGCCCGCGCGGGATCTCGCGCTTGCTCCCCCCCGAGGAGGGCTCTCCCGGTGAGGGCTCG
TCGATCGACCGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGAGAAGA
ACGAGCGGGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAACTGCA
ACAATTTGGGACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCA
GTGGAGCACACCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAAATTTACTG
CACAAGAAGTCACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATTTTTCA
AGGAATGGGATTCTCAGCGCAATCCATACCCTGACAGCAGTAATACGGACAAATTGAGGA
ATTTCATCAAATATGTTTACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGAC
CACCGAGGGGAAAGGACGATAAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATC
GGGGTGGTTCAAGAAGTCCACCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTG
GACGGAGTGATGACAGAAATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACC
AGAATGATTATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAA
CAACTCCAGTTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTG
GGTCTCCAAATTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGA
GGGAGATATTGGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATG
TAGCCAGACCGATTGACCCTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTC
AGGCACAGAGGACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGA
CGAAGGCAGTAACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCAT
CTGCCCTGCCATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTA
TTAACACAACAGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCG
GCGGTGATTGGGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCA
GCACTGTAAATCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCTGAAACACCCTCTG
CCTCCAGTACATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAATGGAGGACAGTCAT
CCATGATAGATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTCAGGCAATC
AGGCCTCAACAGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCC
CTATGGGTGGTCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAG
AAGCAACGTCTTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCT
TTACTTCACTTTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGT
CTGGAATGGGATTTGGCATGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAGTCATATC
CTCAGGCAGCATTTTCTCAACCTACATATCAACAGCCTACATATCAGCAACCTATGTATC
AGCAACCTACATACCAACAACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATC
CCCAACCTGCGAAAGCTTCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAG
CTCACATGTCCCTATCTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAG
TTGGTAACTCTAGTTTTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTG
TACATCAAAACCATTACATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTA
ATGGCATGCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAAC
AAGCTGCCCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAA
ATCCTTTTGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTA
TCTTATGTATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCA
CAAAGCCCTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCT
CCGTGTAACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGT
TCGGTGCTTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCC
TCCGATGTATATTCACAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAG
CGGCCCTATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCA
ATTTTAATGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGTT
TTGGTCTCACGCTATTGCATTACGGATCATTTGGTGGTACGTGTTACCATCTGTTTTTCC
TTTCTTCCTGGCATGGTTGTTTTTCTTACTATTCTTAGATTAGAGGAACATTGAGCGACT
TATGTGACCTTGCCCGTGACGGGTGGGCTCCCGATGGTGCTGCT



Protein Sequence (714 aa)

>BART1_0-u44239.006 714 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQRTATASS
IGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHVL
EQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFSTS
VDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLLP
SNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQYP
AGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNPF
DLGNEAAPIQAHMSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHYMMQH
VSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG