Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.007

ChromosomeExonStartStopDirection
chr6H1180782519180781772-
chr6H2180782974180782908-
chr6H3180783208180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786857-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180788070180788009-
chr6H13180789163180789050-
chr6H14180789562180789288-


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
morexLEA0.5260790.00000007501990
morexEPI000.000394314
morexROO0.00000007155430.0009097920
morexROO20.00000000091150800
morexNOD0.47642300
morexRAC000
morexINF11.495811.775181.0404
morexINF20.65345101.38246
morexCAR53.800061.194131.18673
morexCAR151.583840.2935110.081739
morexLEM000
morexLOD000
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +3 0.0 758 517/752 (69%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +3 2e-87 293 219/554 (40%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +3 0.0 929 586/723 (81%) 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 (3071 bp)

>BART1_0-u44239.007 3071 150831_barley_pseudomolecules
CGCCGCCCGGCGACCGGCTTCAGCCGGTCCACACCCGCAAGTTGACCGCCAGCCGTCGCT
CTGCCTTCTTCTCCTCTGCCGGTAAATAAAACCCCACGACGAGGGAAAAACTTTTTTTCT
ACTAACACGCGCAGCCCCAGCGAAGCAGCTCAGCGGCGACAACAAAAGAGGGGACCCTTT
CCGTTGGTCGCCACCGCCAACTCGCCTCGGCCCCCGCTCCTCCGCACGCCCGCGCGGGAT
CTCGCGCTTGCTCCCCCCCGAGGAGGGCTCTCCCGGGTTTGCGGCGGGCGATGGCGAGCC
GGGTGAAGGAGGACGAGAAGAACGAGCGGGTAATACGCGGGCTGCTCAAGCTGCCCGCAA
ACAAGAGGTGCATCAACTGCAACAATTTGGGACCACAATATGTATGCACAAATTTCTGGA
CCTTCGTTTGTACCAATTGCAGTGGAGCACACCGAGAGTTCACGCACCGGGTGAAATCTG
TTTCCATGGCTAAATTTACTGCACAAGAAGTCACTGCTCTACAAGGAGGAGGAAATGAGC
GTGCTAGAGAAATATTTTTCAAGGAATGGGATTCTCAGCGCAATCCATACCCTGACAGCA
GTAATACGGACAAATTGAGGAATTTCATCAAATATGTTTACGTGGAACGGCGATATACAG
GAGAAAGAAGCTCTGATAGACCACCGAGGGGAAAGGACGATAAGGATGAACATAGCGAAA
ATAGAAGATCTGATGGAAATCGGGGTGGTTCAAGAAGTCCACCATATAATGAAAGTTACT
CTGACCGTCGGAGTTATAGTGGACGGAGTGATGACAGAAATTCCAGACATTCCTATGGAG
AACGTAGTCCTGGCTATGACCAGAATGATTATAAGAAAAGCCCCCGCCACTTTGAAGTTG
TCGACGATAGATCTGGGAAAACAACTCCAGTTCAAAGGTTCGAGGACCGCAGGTTTTCTG
AACCACGAAAGCCAGAGACTGGGTCTCCAAATTACCAGAGAGAAGCCAATGGATCTAGTC
CTCCTGTTGTACGGCCAGTGAGGGAGATATTGGGTGATGATGCTCCTCAACTTCGGATTG
GTGAACCTCCAAAGCCGAATGTAGCCAGACCGATTGACCCTCCAAAACCAAATGGAGCCA
GGACCATTGAACCTCCACCTCAGGCACAGGTTAGGACAGCTACTGCCAGCAGCATTGGTT
CTTCCGAGGGGATTTCGGAACAGACGAAGGCAGTAACTCCAGTCAGTTTAATTGATTTTG
GTGCAGATCCCGAACCTACTGCATCTGCCCTGCCATCACAGACAGCCCCTACACCCCAGC
AGCAGTCAGTTAATGCACAGCCTATTAACACAACAGCGCCACAACATGTTCTTGAACAAG
GCAGAAGTGCTCCATCAGTGAGCGGCGGTGATTGGGCATCTTTTGATGCTTTTGGCCAGC
AACAACAAACACCACAATCAGGCAGCACTGTAAATCCGCTTGAGTCTGTGCTTGCACAAC
TATCATTCTCTGAAACACCCTCTGCCTCCAGTACATCAGCCTTTTCAACTTCTGTTGATC
AGCAAGCAAATGGAGGACAGTCATCCATGATAGATCCATCACATTCTTCATTATTTGGTC
CACCCGTTGGAATCTCAGGCAATCAGGCCTCAACAGGAATGCCCGTCCAAGGATCTGCAG
TTCATCAATCTGCTGTGGCTGCCCCTATGGGTGGTCTTCCATCTCTATTGCCTTCAAATT
CTCAAGGAACAAGTGGTATTCAAGAAGCAACGTCTTCTCATGACAGCAAATCCAGTGGGC
GGACAGCACTTCCAGTGGATTTCTTTACTTCACTTTATCCATCAGCAACTCCAGCAATGC
CTGGCTGGCAGAGAGCTCCCCAGTCTGGAATGGGATTTGGCATGCAGTATCCTGCCGGAA
TGTTGCAGGGAATGCAGTCATATCCTCAGGCAGCATTTTCTCAACCTACATATCAACAGC
CTACATATCAGCAACCTATGTATCAGCAACCTACATACCAACAACCTACGTATCAACAGC
CTGTATATCAGCAAAATGCATATCCCCAACCTGCGAAAGCTTCAAACCCTTTTGACCTCG
GAAATGAGGCAGCTCCAATTCAAGCTCACATGCAGTCCCTATCTGGACCACTGGGAGCAT
CAGCAGGCGCTGCTAACCCAACATTAGTTGGTAACTCTAGTTTTGGAGTTCCACCTCAGC
AGCCTCAGCAGATGTATCAGCCACCTGTACATCAAAACCATTACATGATGCAGCATGTTT
CAAACAACATGCCTGAGCAGCTACCTAATGGCATGCTTCCAAGGCAACAAGGAGGGGCTG
GTTCCCTCGGCGTCGGATATGATCAACAAGCTGCCCCTAGGTACTCCCAGCCAAGCACCC
CACCTTCATATGGTGCTGTCGGTGGAAATCCTTTTGGGTAAAAAAGGCTTATCAAATGTG
GACGTACCATGTTACCTGTTTATGGTATCTTATGTATCTTCAGACCACTGGTGTGTAGTG
CCCACTGCCCAGTGAGACCAGAATGCACAAAGCCCTGGAGAAAAATTTGTTTCATATTTA
CTGGTCATGTGTTCTGTCACTGTAGCTCCGTGTAACTTGGTCTGGGAGGTGGAAGCGACG
TGGTGCATAAGCTTCAGGAGCAGTAGTTCGGTGCTTCTAGCCCCTATTTTCTTGTATATT
TGTGTTTGGTGTTCTGTATGCGTTGCCTCCGATGTATATTCACAGAGACCCTATGCCTTG
TATGGTTTTTGATTGGGATCTTTCGAGCGGCCCTATCTGATAGTGTACTTAGCTCAGAAT
GTTACTTTTAGTCATGCTGGGTATTCAATTTTAATGTTTATTGCAATGTCGGACTGAAGG
TTGTATAACTGTGGTTAATCAGTTGTTTTGGTCTCACGCTATTGCATTACGGATCATTTG
GTGGTACGTGTTACCATCTGTTTTTCCTTTCTTCCTGGCATGGTTGTTTTTCTTACTATT
CTTAGATTAGAGGAACATTGAGCGACTTATGTGACCTTGCCCGTGACGGGTGGGCTCCCG
ATGGTGCTGCT



Protein Sequence (716 aa)

>BART1_0-u44239.007 716 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQVRTATAS
SIGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHV
LEQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFST
SVDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLL
PSNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQY
PAGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNP
FDLGNEAAPIQAHMQSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHYMM
QHVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG