Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.009

ChromosomeExonStartStopDirection
chr6H1180782519180781801-
chr6H2180782974180782908-
chr6H3180783208180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786316180786233-
chr6H8180786706180786410-
chr6H9180787333180786860-
chr6H10180787544180787451-
chr6H11180787695180787634-
chr6H12180787865180787778-
chr6H13180788070180788009-
chr6H14180789166180789050-
chr6H15180789578180789288-


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
morexETI000.229774
morexLEA000
morexEPI000
morexROO000
morexROO2000.437883
morexNOD000
morexRAC000
morexINF100.3065560
morexINF2000
morexCAR5000
morexCAR15000
morexLEM00.1999720
morexLOD000
morexPAL000.271278
morexSEN00.2090150



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +1 0.0 742 492/750 (66%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +1 2e-86 290 205/531 (39%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +1 0.0 902 559/721 (78%) 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 (2965 bp)

>BART1_0-u44239.009 2965 150831_barley_pseudomolecules
CTCCCTCCCGCGGTCCCGCCGCCCGGCGACCGGCTTCAGCCGGTCCACACCCGCAAGTTG
ACCGCCAGCCGTCGCTCTGCCTTCTTCTCCTCTGCCGGTAAATAAAACCCCACGACGAGG
GAAAAACTTTTTTTCTACTAACACGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACA
AAAGAGGGGACCCTTTCCGTTGGTCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCG
CACGCCCGCGCGGGATCTCGCGCTTGCTCCCCCCCGAGGAGGGCTCTCCCGCAGGGTTTG
CGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGAGAAGAACGAGCGGGTAATACGCGGG
CTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAACTGCAACAATTTGGGACCACAATAT
GTATGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCAGTGGAGCACACCGAGAGTTC
ACGCACCGGGTGAAATCTGTTTCCATGGCTAAATTTACTGCACAAGAAGTCACTGCTCTA
CAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATTTTTCAAGGAATGGGATTCTCAGCGC
AATCCATACCCTGACAGCAGTAATACGGACAAATTGAGGAATTTCATCAAATATGTTTAC
GTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGACCACCGAGGGGAAAGGACGAT
AAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATCGGGGTGGTTCAAGAAGTCCA
CCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTGGACGGAGTGATGACAGAAAT
TCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACCAGAATGATTATAAGAAAAGC
CCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAACAACTCCAGTTCAAAGGTTC
GAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTGGGTCTCCAAATTACCAGAGA
GAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGAGGGAGATATTGGGTGATGAT
GCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATGTAGCCAGACCGATTGACCCT
CCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTCAGGCACAGAGGACAGCTACT
GCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGACGAAGGCAGTAACTCCAGTC
AGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCATCTGCCCTGCCATCACAGACA
GCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTATTAACACAACAGCGCCACAA
CATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCGGCGGTGATTGGGCATCTTTT
GATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCAGCACTCAAGCAAATGGAGGA
CAGTCATCCATGATAGATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTCA
GGCAATCAGGCCTCAACAGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTG
GCTGCCCCTATGGGTGGTCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGT
ATTCAAGAAGCAACGTCTTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTG
GATTTCTTTACTTCACTTTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCT
CCCCAGTCTGGAATGGGATTTGGCATGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAG
TCATATCCTCAGGCAGCATTTTCTCAACCTACATATCAACAGCCTACATATCAGCAACCT
ATGTATCAGCAACCTACATACCAACAACCTACGTATCAACAGCCTGTATATCAGCAAAAT
GCATATCCCCAACCTGCGAAAGCTTCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCA
ATTCAAGCTCACATGCAGTCCCTATCTGGACCACTGGGAGCATCAGCAGGCGCTGCTAAC
CCAACATTAGTTGGTAACTCTAGTTTTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTAT
CAGCCACCTGTACATCAAAACCATTACATGATGCAGCATGTTTCAAACAACATGCCTGAG
CAGCTACCTAATGGCATGCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGA
TATGATCAACAAGCTGCCCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATATGGTGCT
GTCGGTGGAAATCCTTTTGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATGTTACCT
GTTTATGGTATCTTATGTATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGA
CCAGAATGCACAAAGCCCTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTGTTCTGT
CACTGTAGCTCCGTGTAACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAG
GAGCAGTAGTTCGGTGCTTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGT
ATGCGTTGCCTCCGATGTATATTCACAGAGACCCTATGCCTTGTATGGTTTTTGATTGGG
ATCTTTCGAGCGGCCCTATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAGTCATGC
TGGGTATTCAATTTTAATGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTGTGGTTA
ATCAGTTGTTTTGGTCTCACGCTATTGCATTACGGATCATTTGGTGGTACGTGTTACCAT
CTGTTTTTCCTTTCTTCCTGGCATGGTTGTTTTTCTTACTATTCTTAGATTAGAGGAACA
TTGAGCGACTTATGTGACCTTGCCC



Protein Sequence (684 aa)

>BART1_0-u44239.009 684 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQRTATASS
IGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHVL
EQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTQANGGQSSMIDPSHSSLFGPPVGISGNQ
ASTGMPVQGSAVHQSAVAAPMGGLPSLLPSNSQGTSGIQEATSSHDSKSSGRTALPVDFF
TSLYPSATPAMPGWQRAPQSGMGFGMQYPAGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQ
QPTYQQPTYQQPVYQQNAYPQPAKASNPFDLGNEAAPIQAHMQSLSGPLGASAGAANPTL
VGNSSFGVPPQQPQQMYQPPVHQNHYMMQHVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQ
QAAPRYSQPSTPPSYGAVGGNPFG