Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.017

ChromosomeExonStartStopDirection
chr6H1180782519180781903-
chr6H2180782974180782908-
chr6H3180783205180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786857-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180788070180788009-
chr6H13180789166180789050-
chr6H14180789581180789266-


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
morexLEA000
morexEPI00.000000001915970
morexROO000
morexROO2000
morexNOD000
morexRAC000
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +2 0.0 753 507/752 (67%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +2 9e-88 293 219/554 (40%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +2 0.0 932 597/722 (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 (2981 bp)

>BART1_0-u44239.017 2981 150831_barley_pseudomolecules
CGCCTCCCTCCCGCGGTCCCGCCGCCCGGCGACCGGCTTCAGCCGGTCCACACCCGCAAG
TTGACCGCCAGCCGTCGCTCTGCCTTCTTCTCCTCTGCCGGTAAATAAAACCCCACGACG
AGGGAAAAACTTTTTTTCTACTAACACGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACA
ACAAAAGAGGGGACCCTTTCCGTTGGTCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCT
CCGCACGCCCGCGCGGGATCTCGCGCTTGCTCCCCCCCGAGGAGGGCTCTCCCGGTGAGG
GCTCGTCGATCGACCGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGA
GAAGAACGAGCGGGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAA
CTGCAACAATTTGGGACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTACCAA
TTGCAGTGGAGCACACCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAAATT
TACTGCACAAGAAGTCACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATT
TTTCAAGGAATGGGATTCTCAGCGCAATCCATACCCTGACAGCAGTAATACGGACAAATT
GAGGAATTTCATCAAATATGTTTACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGA
TAGACCACCGAGGGGAAAGGACGATAAGGATGAACATAGCGAAAATAGAAGATCTGATGG
AAATCGGGGTGGTTCAAGAAGTCCACCATATAATGAAAGTTACTCTGACCGTCGGAGTTA
TAGTGGACGGAGTGATGACAGAAATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTA
TGACCAGAATGATTATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGG
GAAAACAACTCCAGTTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGA
GACTGGGTCTCCAAATTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCC
AGTGAGGGAGATATTGGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCC
GAATGTAGCCAGACCGATTGACCCTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCC
ACCTCAGGCACAGGTTAGGACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTC
GGAACAGACGAAGGCAGTAACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCCGAACC
TACTGCATCTGCCCTGCCATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTTAATGC
ACAGCCTATTAACACAACAGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCTCCATC
AGTGAGCGGCGGTGATTGGGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACACCACA
ATCAGGCAGCACTGTAAATCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCTGAAAC
ACCCTCTGCCTCCAGTACATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAATGGAGG
ACAGTCATCCATGATAGATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTC
AGGCAATCAGGCCTCAACAGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGT
GGCTGCCCCTATGGGTGGTCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGG
TATTCAAGAAGCAACGTCTTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTTCCAGT
GGATTTCTTTACTTCACTTTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGC
TCCCCAGTCTGGAATGGGATTTGGCATGCAGTATCCTGCCGGAATGTTGCAGGGAATGCA
GTCATATCCTCAGGCAGCATTTTCTCAACCTACATATCAACAGCCTACATATCAGCAACC
TATGTATCAGCAACCTACATACCAACAACCTACGTATCAACAGCCTGTATATCAGCAAAA
TGCATATCCCCAACCTGCGAAAGCTTCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCC
AATTCAAGCTCACATGTCCCTATCTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCC
AACATTAGTTGGTAACTCTAGTTTTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCA
GCCACCTGTACATCAAAACCATTACATGATGCAGCATGTTTCAAACAACATGCCTGAGCA
GCTACCTAATGGCATGCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATA
TGATCAACAAGCTGCCCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGT
CGGTGGAAATCCTTTTGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATGTTACCTGT
TTATGGTATCTTATGTATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACC
AGAATGCACAAAGCCCTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCA
CTGTAGCTCCGTGTAACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGA
GCAGTAGTTCGGTGCTTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTAT
GCGTTGCCTCCGATGTATATTCACAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGAT
CTTTCGAGCGGCCCTATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTG
GGTATTCAATTTTAATGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAAT
CAGTTGTTTTGGTCTCACGCTATTGCATTACGGATCATTTG



Protein Sequence (715 aa)

>BART1_0-u44239.017 715 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQVRTATAS
SIGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHV
LEQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFST
SVDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLL
PSNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQY
PAGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNP
FDLGNEAAPIQAHMSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHYMMQ
HVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG