Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.018

ChromosomeExonStartStopDirection
chr6H1180782519180781909-
chr6H2180783208180782908-
chr6H3180783571180783362-
chr6H4180783770180783666-
chr6H5180786158180785988-
chr6H6180786706180786233-
chr6H7180787333180786857-
chr6H8180787544180787451-
chr6H9180787695180787634-
chr6H10180787865180787778-
chr6H11180788070180788009-
chr6H12180789166180789050-
chr6H13180789555180789288-


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
morexEMB0.7311761.903041.53337
morexETI1.277381.239622.5708
morexLEA1.664550.6366220.481632
morexEPI1.861220.7713832.31669
morexROO0.0000001537171.301420.911547
morexROO23.318775.255463.64025
morexNOD1.282282.767072.92095
morexRAC4.194374.224234.75226
morexINF14.502436.30042.12537
morexINF26.192427.57067.70097
morexCAR54.737111.664742.56014
morexCAR150.5544261.036262.86394
morexLEM2.947473.399184.36427
morexLOD10.93294.617624.33232
morexPAL1.590292.403022.65515
morexSEN0.3638822.160180.932985



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +2 0.0 668 458/675 (68%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +2 1e-87 293 221/554 (40%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +2 0.0 813 520/646 (80%) 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 (3040 bp)

>BART1_0-u44239.018 3040 150831_barley_pseudomolecules
CGGCGACCGGCTTCAGCCGGTCCACACCCGCAAGTTGACCGCCAGCCGTCGCTCTGCCTT
CTTCTCCTCTGCCGGTAAATAAAACCCCACGACGAGGGAAAAACTTTTTTTCTACTAACA
CGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACAAAAGAGGGGACCCTTTCCGTTGG
TCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCGCACGCCCGCGCGGGATCTCGCGC
TTGCTCCCCCCCGAGGAGGGCTCTCCCGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGT
GAAGGAGGACGAGAAGAACGAGCGGGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAA
GAGGTGCATCAACTGCAACAATTTGGGACCACAATATGTATGCACAAATTTCTGGACCTT
CGTTTGTACCAATTGCAGTGGAGCACACCGAGAGTTCACGCACCGGGTGAAATCTGTTTC
CATGGCTAAATTTACTGCACAAGAAGTCACTGCTCTACAAGGAGGAGGAAATGAGCGTGC
TAGAGAAATATTTTTCAAGGAATGGGATTCTCAGCGCAATCCATACCCTGACAGCAGTAA
TACGGACAAATTGAGGAATTTCATCAAATATGTTTACGTGGAACGGCGATATACAGGAGA
AAGAAGCTCTGATAGACCACCGAGGGGAAAGGACGATAAGGATGAACATAGCGAAAATAG
AAGATCTGATGGAAATCGGGGTGGTTCAAGAAGTCCACCATATAATGAAAGTTACTCTGA
CCGTCGGAGTTATAGTGGACGGAGTGATGACAGAAATTCCAGACATTCCTATGGAGAACG
TAGTCCTGGCTATGACCAGAATGATTATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGA
CGATAGATCTGGGAAAACAACTCCAGTTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACC
ACGAAAGCCAGAGACTGGGTCTCCAAATTACCAGAGAGAAGCCAATGGATCTAGTCCTCC
TGTTGTACGGCCAGTGAGGGAGATATTGGGTGATGATGCTCCTCAACTTCGGATTGGTGA
ACCTCCAAAGCCGAATGTAGCCAGACCGATTGACCCTCCAAAACCAAATGGAGCCAGGAC
CATTGAACCTCCACCTCAGGCACAGGTTAGGACAGCTACTGCCAGCAGCATTGGTTCTTC
CGAGGGGATTTCGGAACAGACGAAGGCAGTAACTCCAGTCAGTTTAATTGATTTTGGTGC
AGATCCCGAACCTACTGCATCTGCCCTGCCATCACAGACAGCCCCTACACCCCAGCAGCA
GTCAGTTAATGCACAGCCTATTAACACAACAGCGCCACAACATGTTCTTGAACAAGGCAG
AAGTGCTCCATCAGTGAGCGGCGGTGATTGGGCATCTTTTGATGCTTTTGGCCAGCAACA
ACAAACACCACAATCAGGCAGCACTGTAAATCCGCTTGAGTCTGTGCTTGCACAACTATC
ATTCTCTGAAACACCCTCTGCCTCCAGTACATCAGCCTTTTCAACTTCTGTTGATCAGCA
AGCAAATGGAGGACAGTCATCCATGATAGATCCATCACATTCTTCATTATTTGGTCCACC
CGTTGGAATCTCAGGCAATCAGGCCTCAACAGGAATGCCCGTCCAAGGATCTGCAGTTCA
TCAATCTGCTGTGGCTGCCCCTATGGGTGGTCTTCCATCTCTATTGCCTTCAAATTCTCA
AGGAACAAGTGGTATTCAAGAAGCAACGTCTTCTCATGACAGCAAATCCAGTGGGCGGAC
AGCACTTCCAGTGGATTTCTTTACTTCACTTTATCCATCAGCAACTCCAGCAATGCCTGG
CTGGCAGAGAGCTCCCCAGTCTGGAATGGGATTTGGCATGCAGTATCCTGCCGGAATGTT
GCAGGGAATGCAGTCATATCCTCAGGCAGCATTTTCTCAACCTACATATCAACAGCCTAC
ATATCAGCAACCTATGTATCAGCAACCTACATACCAACAACCTACGTATCAACAGCCTGT
ATATCAGCAAAATGCATATCCCCAACCTGCGAAAGCTTCAAACCCTTTTGACCTCGGAAA
TGAGGCAGCTCCAATTCAAGCTCACATGCAGTCCCTATCTGGACCACTGGGAGCATCAGC
AGGCGCTGCTAACCCAACATTAGTTGGTAACTCTAGTTTTGGAGTTCCACCTCAGCAGCC
TCAGCAGATGTATCAGCCACCTGTACATCAAAGTATTTACTTAGTTTCTCATCATCATCT
CTACACTCTTGCTCTTTATTATTATTACTGCTACCAGTACTACTACTTTGACATGCGGTA
CTAATTTGTGATTCAACTTCAGACCATTACATGATGCAGCATGTTTCAAACAACATGCCT
GAGCAGCTACCTAATGGCATGCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGCGTC
GGATATGATCAACAAGCTGCCCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATATGGT
GCTGTCGGTGGAAATCCTTTTGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATGTTA
CCTGTTTATGGTATCTTATGTATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCAGTG
AGACCAGAATGCACAAAGCCCTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTGTTC
TGTCACTGTAGCTCCGTGTAACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAGCTT
CAGGAGCAGTAGTTCGGTGCTTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTGTTC
TGTATGCGTTGCCTCCGATGTATATTCACAGAGACCCTATGCCTTGTATGGTTTTTGATT
GGGATCTTTCGAGCGGCCCTATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAGTCA
TGCTGGGTATTCAATTTTAATGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTGTGG
TTAATCAGTTGTTTTGGTCTCACGCTATTGCATTACGGAT



Protein Sequence (685 aa)

>BART1_0-u44239.018 685 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQVRTATAS
SIGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHV
LEQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFST
SVDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLL
PSNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQY
PAGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNP
FDLGNEAAPIQAHMQSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQSIYLV
SHHHLYTLALYYYYCYQYYYFDMRY