Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.013

ChromosomeExonStartStopDirection
chr6H1180782519180781900-
chr6H2180782974180782908-
chr6H3180783205180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786148180785988-
chr6H7180786706180786233-
chr6H8180787333180786860-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180788070180788009-
chr6H13180789163180789050-
chr6H14180789452180789266-


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
morexEMB1.06335.846285.35955
morexETI1.153120.7573443.67054
morexLEA4.985463.506390.0000337625
morexEPI02.153130.0671979
morexROO1.655124.053451.47676
morexROO21.462571.258791.58753
morexNOD4.001424.666443.0473
morexRAC3.0931412.9029.27236
morexINF18.556946.419357.81627
morexINF210.978613.396811.8593
morexCAR516.433716.192216.0222
morexCAR152.083263.069534.93849
morexLEM4.384144.605592.77141
morexLOD4.194334.597215.79435
morexPAL8.750093.382114.44376
morexSEN1.355891.804481.9695



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +2 0.0 524 358/486 (74%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +2 2e-76 262 176/413 (43%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +2 0.0 640 396/455 (87%) 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 (2839 bp)

>BART1_0-u44239.013 2839 150831_barley_pseudomolecules
CTTTTTTTCTACTAACACGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACAAAAGAG
GGGACCCTTTCCGTTGGTCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCGCACGCC
CGCGCGGGATCTCGCGCTTGCTCCCCCCCGAGGAGGGCTCTCCCGGTGAGGGCTCGTCGA
TCGACCGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGAGAAGAACGAGCG
GGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAACTGCAACAATTT
GGGACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCAGTGGAGC
ACACCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAAATTTACTGCACAAGA
AGTCACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATTTTTCAAGGAATG
GGATTCTCAGCGCAATCCATACCCTGACAGCAGTAATACGGACAAATTGAGGAATTTCAT
CAAATATGTTTACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGACCACCGAG
GGGAAAGGACGATAAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATCGGGGTGG
TTCAAGAAGTCCACCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTGGACGGAG
TGATGACAGAAATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACCAGAATGA
TTATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAACAACTCC
AGTTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTGGGTCTCC
AAATTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGAGGGAGAT
ATTGGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATGTAGCCAG
ACCGATTGACCCTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTCAGGCACA
GAGGACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGACGAAGGC
AGTAACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCATCTGCCCT
GCCATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTATTAACAC
AACAGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCGGCGGTGA
TTGGGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCAGCACTGT
AAATCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCTGAAACACCCTCTGCCTCCAG
TACATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAATGGAGGACAGTCATCCATGAT
AGATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTCAGGCAATCAGGAATG
CCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCCCTATGGGTGGTCTTCCA
TCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAGAAGCAACGTCTTCTCAT
GACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCTTTACTTCACTTTATCCA
TCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGTCTGGAATGGGATTTGGC
ATGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAGTCATATCCTCAGGCAGCATTTTCT
CAACCTACATATCAACAGCCTACATATCAGCAACCTATGTATCAGCAACCTACATACCAA
CAACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATCCCCAACCTGCGAAAGCT
TCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAGCTCACATGTCCCTATCT
GGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAGTTGGTAACTCTAGTTTT
GGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTGTACATCAAAACCATTAC
ATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTAATGGCATGCTTCCAAGG
CAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAACAAGCTGCCCCTAGGTAC
TCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAAATCCTTTTGGGTAAAAA
AGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTATCTTATGTATCTTCAGA
CCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCACAAAGCCCTGGAGAAAA
ATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCTCCGTGTAACTTGGTCTG
GGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGTTCGGTGCTTCTAGCCCC
TATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCCTCCGATGTATATTCACA
GAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAGCGGCCCTATCTGATAGT
GTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCAATTTTAATGTTTATTGC
AATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGTTTTGGTCTCACGCTATTG
CATTACGGATCATTTGGTG



Protein Sequence (626 aa)

>BART1_0-u44239.013 626 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQRTATASS
IGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHVL
EQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFSTS
VDQQANGGQSSMIDPSHSSLFGPPVGISGNQECPSKDLQFINLLWLPLWVVFHLYCLQIL
KEQVVFKKQRLLMTANPVGGQHFQWISLLHFIHQQLQQCLAGRELPSLEWDLACSILPEC
CRECSHILRQHFLNLHINSLHISNLCISNLHTNNLRINSLYISKMHIPNLRKLQTLLTSE
MRQLQFKLTCPYLDHWEHQQALLTQH