Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.020

ChromosomeExonStartStopDirection
chr6H1180782519180781911-
chr6H2180782974180782908-
chr6H3180783208180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786860-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180789166180789050-
chr6H13180789433180789288-


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
morexEMB7.204522.774940.0747072
morexETI19.179416.218517.1983
morexLEA10.57065.508916.9413
morexEPI4.585599.920668.22714
morexROO11.77234.42292.13156
morexROO221.039322.581719.8674
morexNOD17.734837.425812.8408
morexRAC29.923233.119633.1934
morexINF112.613912.766716.9263
morexINF223.098319.594519.1111
morexCAR516.09688.3617112.0917
morexCAR157.894629.687394.43711
morexLEM26.559422.300616.1077
morexLOD32.644934.041941.873
morexPAL22.229622.483932.3744
morexSEN7.2119912.476411.3993



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +1 0.0 639 469/713 (66%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +1 1e-50 188 176/515 (34%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +1 0.0 808 535/684 (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 (2741 bp)

>BART1_0-u44239.020 2741 150831_barley_pseudomolecules
CGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACAAAAGAGGGGACCCTTTCCGTTGGTC
GCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCGCACGCCCGCGCGGGATCTCGCGCTT
GCTCCCCCCCGAGGAGGGCTCTCCCGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGA
AGGAGGACGAGAAGAACGAGCGGGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGA
GGTGCATCAACTGCAACAATTTGCCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATG
GCTAAATTTACTGCACAAGAAGTCACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGA
GAAATATTTTTCAAGGAATGGGATTCTCAGCGCAATCCATACCCTGACAGCAGTAATACG
GACAAATTGAGGAATTTCATCAAATATGTTTACGTGGAACGGCGATATACAGGAGAAAGA
AGCTCTGATAGACCACCGAGGGGAAAGGACGATAAGGATGAACATAGCGAAAATAGAAGA
TCTGATGGAAATCGGGGTGGTTCAAGAAGTCCACCATATAATGAAAGTTACTCTGACCGT
CGGAGTTATAGTGGACGGAGTGATGACAGAAATTCCAGACATTCCTATGGAGAACGTAGT
CCTGGCTATGACCAGAATGATTATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGAT
AGATCTGGGAAAACAACTCCAGTTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGA
AAGCCAGAGACTGGGTCTCCAAATTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTT
GTACGGCCAGTGAGGGAGATATTGGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCT
CCAAAGCCGAATGTAGCCAGACCGATTGACCCTCCAAAACCAAATGGAGCCAGGACCATT
GAACCTCCACCTCAGGCACAGAGGACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGG
ATTTCGGAACAGACGAAGGCAGTAACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCC
GAACCTACTGCATCTGCCCTGCCATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTT
AATGCACAGCCTATTAACACAACAGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCT
CCATCAGTGAGCGGCGGTGATTGGGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACA
CCACAATCAGGCAGCACTGTAAATCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCT
GAAACACCCTCTGCCTCCAGTACATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAAT
GGAGGACAGTCATCCATGATAGATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGA
ATCTCAGGCAATCAGGCCTCAACAGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCT
GCTGTGGCTGCCCCTATGGGTGGTCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACA
AGTGGTATTCAAGAAGCAACGTCTTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTT
CCAGTGGATTTCTTTACTTCACTTTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAG
AGAGCTCCCCAGTCTGGAATGGGATTTGGCATGCAGTATCCTGCCGGAATGTTGCAGGGA
ATGCAGTCATATCCTCAGGCAGCATTTTCTCAACCTACATATCAACAGCCTACATATCAG
CAACCTATGTATCAGCAACCTACATACCAACAACCTACGTATCAACAGCCTGTATATCAG
CAAAATGCATATCCCCAACCTGCGAAAGCTTCAAACCCTTTTGACCTCGGAAATGAGGCA
GCTCCAATTCAAGCTCACATGCAGTCCCTATCTGGACCACTGGGAGCATCAGCAGGCGCT
GCTAACCCAACATTAGTTGGTAACTCTAGTTTTGGAGTTCCACCTCAGCAGCCTCAGCAG
ATGTATCAGCCACCTGTACATCAAAACCATTACATGATGCAGCATGTTTCAAACAACATG
CCTGAGCAGCTACCTAATGGCATGCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGC
GTCGGATATGATCAACAAGCTGCCCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATAT
GGTGCTGTCGGTGGAAATCCTTTTGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATG
TTACCTGTTTATGGTATCTTATGTATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCA
GTGAGACCAGAATGCACAAAGCCCTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTG
TTCTGTCACTGTAGCTCCGTGTAACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAG
CTTCAGGAGCAGTAGTTCGGTGCTTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTG
TTCTGTATGCGTTGCCTCCGATGTATATTCACAGAGACCCTATGCCTTGTATGGTTTTTG
ATTGGGATCTTTCGAGCGGCCCTATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAG
TCATGCTGGGTATTCAATTTTAATGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTG
TGGTTAATCAGTTGTTTTGGTCTCACGCTATTGCATTACGG



Protein Sequence (650 aa)

>BART1_0-u44239.020 650 150831_barley_pseudomolecules
MAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVERRYTGE
RSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRHSYGER
SPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREANGSSPP
VVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQRTATASSIGSSE
GISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHVLEQGRS
APSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFSTSVDQQA
NGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLLPSNSQG
TSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQYPAGMLQ
GMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNPFDLGNE
AAPIQAHMQSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHYMMQHVSNN
MPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG