Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u44239.015

ChromosomeExonStartStopDirection
chr6H1180782519180781903-
chr6H2180782974180782908-
chr6H3180783208180783085-
chr6H4180783571180783362-
chr6H5180783770180783666-
chr6H6180786158180785988-
chr6H7180786706180786233-
chr6H8180787333180786857-
chr6H9180787544180787451-
chr6H10180787695180787634-
chr6H11180787865180787778-
chr6H12180788070180788009-
chr6H13180789166180789050-
chr6H14180789351180789288-


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
morexEMB4.7145114.171811.3474
morexETI8.0465110.91137.749
morexLEA9.104664.799488.26697
morexEPI0.9972410.549510.000000114395
morexROO8.854230.005015770.00000114868
morexROO23.777097.335080.735741
morexNOD0.01834699.401644.38679
morexRAC20.41448.07142.17975
morexINF11.735125.87528.34009
morexINF20.0001544440.8447630
morexCAR500.000001321980.0000000586836
morexCAR150.000000001065270.4310560
morexLEM11.30374.493830.986947
morexLOD5.4520813.629717.3307
morexPAL0.8978790.001544012.29878
morexSEN3.702562.47239.09048



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g11820.2 +2 0.0 757 517/752 (69%) protein|GTPase-activating protein, putative, expressed
TAIR PP10 AT4G13350 @ ARAPORT
AT4G13350.2 @ TAIR		 +2 3e-88 293 221/554 (40%) Symbols: NIG | NSP (nuclear shuttle protein)-interacting GTPase | chr4:7770170-7773321 REVERSE LENGTH=602
BRACH PP3 Bradi3g07910.1.p +2 0.0 927 586/723 (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 (2732 bp)

>BART1_0-u44239.015 2732 150831_barley_pseudomolecules
CCCCGCTCCTCCGCACGCCCGCGCGGGATCTCGCGCTTGCTCCCCCCCGAGGAGGGCTCT
CCCGCAGGGTTTGCGGCGGGCGATGGCGAGCCGGGTGAAGGAGGACGAGAAGAACGAGCG
GGTAATACGCGGGCTGCTCAAGCTGCCCGCAAACAAGAGGTGCATCAACTGCAACAATTT
GGGACCACAATATGTATGCACAAATTTCTGGACCTTCGTTTGTACCAATTGCAGTGGAGC
ACACCGAGAGTTCACGCACCGGGTGAAATCTGTTTCCATGGCTAAATTTACTGCACAAGA
AGTCACTGCTCTACAAGGAGGAGGAAATGAGCGTGCTAGAGAAATATTTTTCAAGGAATG
GGATTCTCAGCGCAATCCATACCCTGACAGCAGTAATACGGACAAATTGAGGAATTTCAT
CAAATATGTTTACGTGGAACGGCGATATACAGGAGAAAGAAGCTCTGATAGACCACCGAG
GGGAAAGGACGATAAGGATGAACATAGCGAAAATAGAAGATCTGATGGAAATCGGGGTGG
TTCAAGAAGTCCACCATATAATGAAAGTTACTCTGACCGTCGGAGTTATAGTGGACGGAG
TGATGACAGAAATTCCAGACATTCCTATGGAGAACGTAGTCCTGGCTATGACCAGAATGA
TTATAAGAAAAGCCCCCGCCACTTTGAAGTTGTCGACGATAGATCTGGGAAAACAACTCC
AGTTCAAAGGTTCGAGGACCGCAGGTTTTCTGAACCACGAAAGCCAGAGACTGGGTCTCC
AAATTACCAGAGAGAAGCCAATGGATCTAGTCCTCCTGTTGTACGGCCAGTGAGGGAGAT
ATTGGGTGATGATGCTCCTCAACTTCGGATTGGTGAACCTCCAAAGCCGAATGTAGCCAG
ACCGATTGACCCTCCAAAACCAAATGGAGCCAGGACCATTGAACCTCCACCTCAGGCACA
GGTTAGGACAGCTACTGCCAGCAGCATTGGTTCTTCCGAGGGGATTTCGGAACAGACGAA
GGCAGTAACTCCAGTCAGTTTAATTGATTTTGGTGCAGATCCCGAACCTACTGCATCTGC
CCTGCCATCACAGACAGCCCCTACACCCCAGCAGCAGTCAGTTAATGCACAGCCTATTAA
CACAACAGCGCCACAACATGTTCTTGAACAAGGCAGAAGTGCTCCATCAGTGAGCGGCGG
TGATTGGGCATCTTTTGATGCTTTTGGCCAGCAACAACAAACACCACAATCAGGCAGCAC
TGTAAATCCGCTTGAGTCTGTGCTTGCACAACTATCATTCTCTGAAACACCCTCTGCCTC
CAGTACATCAGCCTTTTCAACTTCTGTTGATCAGCAAGCAAATGGAGGACAGTCATCCAT
GATAGATCCATCACATTCTTCATTATTTGGTCCACCCGTTGGAATCTCAGGCAATCAGGC
CTCAACAGGAATGCCCGTCCAAGGATCTGCAGTTCATCAATCTGCTGTGGCTGCCCCTAT
GGGTGGTCTTCCATCTCTATTGCCTTCAAATTCTCAAGGAACAAGTGGTATTCAAGAAGC
AACGTCTTCTCATGACAGCAAATCCAGTGGGCGGACAGCACTTCCAGTGGATTTCTTTAC
TTCACTTTATCCATCAGCAACTCCAGCAATGCCTGGCTGGCAGAGAGCTCCCCAGTCTGG
AATGGGATTTGGCATGCAGTATCCTGCCGGAATGTTGCAGGGAATGCAGTCATATCCTCA
GGCAGCATTTTCTCAACCTACATATCAACAGCCTACATATCAGCAACCTATGTATCAGCA
ACCTACATACCAACAACCTACGTATCAACAGCCTGTATATCAGCAAAATGCATATCCCCA
ACCTGCGAAAGCTTCAAACCCTTTTGACCTCGGAAATGAGGCAGCTCCAATTCAAGCTCA
CATGCAGTCCCTATCTGGACCACTGGGAGCATCAGCAGGCGCTGCTAACCCAACATTAGT
TGGTAACTCTAGTTTTGGAGTTCCACCTCAGCAGCCTCAGCAGATGTATCAGCCACCTGT
ACATCAAAACCATTACATGATGCAGCATGTTTCAAACAACATGCCTGAGCAGCTACCTAA
TGGCATGCTTCCAAGGCAACAAGGAGGGGCTGGTTCCCTCGGCGTCGGATATGATCAACA
AGCTGCCCCTAGGTACTCCCAGCCAAGCACCCCACCTTCATATGGTGCTGTCGGTGGAAA
TCCTTTTGGGTAAAAAAGGCTTATCAAATGTGGACGTACCATGTTACCTGTTTATGGTAT
CTTATGTATCTTCAGACCACTGGTGTGTAGTGCCCACTGCCCAGTGAGACCAGAATGCAC
AAAGCCCTGGAGAAAAATTTGTTTCATATTTACTGGTCATGTGTTCTGTCACTGTAGCTC
CGTGTAACTTGGTCTGGGAGGTGGAAGCGACGTGGTGCATAAGCTTCAGGAGCAGTAGTT
CGGTGCTTCTAGCCCCTATTTTCTTGTATATTTGTGTTTGGTGTTCTGTATGCGTTGCCT
CCGATGTATATTCACAGAGACCCTATGCCTTGTATGGTTTTTGATTGGGATCTTTCGAGC
GGCCCTATCTGATAGTGTACTTAGCTCAGAATGTTACTTTTAGTCATGCTGGGTATTCAA
TTTTAATGTTTATTGCAATGTCGGACTGAAGGTTGTATAACTGTGGTTAATCAGTTGTTT
TGGTCTCACGCTATTGCATTACGGATCATTTG



Protein Sequence (716 aa)

>BART1_0-u44239.015 716 150831_barley_pseudomolecules
MASRVKEDEKNERVIRGLLKLPANKRCINCNNLGPQYVCTNFWTFVCTNCSGAHREFTHR
VKSVSMAKFTAQEVTALQGGGNERAREIFFKEWDSQRNPYPDSSNTDKLRNFIKYVYVER
RYTGERSSDRPPRGKDDKDEHSENRRSDGNRGGSRSPPYNESYSDRRSYSGRSDDRNSRH
SYGERSPGYDQNDYKKSPRHFEVVDDRSGKTTPVQRFEDRRFSEPRKPETGSPNYQREAN
GSSPPVVRPVREILGDDAPQLRIGEPPKPNVARPIDPPKPNGARTIEPPPQAQVRTATAS
SIGSSEGISEQTKAVTPVSLIDFGADPEPTASALPSQTAPTPQQQSVNAQPINTTAPQHV
LEQGRSAPSVSGGDWASFDAFGQQQQTPQSGSTVNPLESVLAQLSFSETPSASSTSAFST
SVDQQANGGQSSMIDPSHSSLFGPPVGISGNQASTGMPVQGSAVHQSAVAAPMGGLPSLL
PSNSQGTSGIQEATSSHDSKSSGRTALPVDFFTSLYPSATPAMPGWQRAPQSGMGFGMQY
PAGMLQGMQSYPQAAFSQPTYQQPTYQQPMYQQPTYQQPTYQQPVYQQNAYPQPAKASNP
FDLGNEAAPIQAHMQSLSGPLGASAGAANPTLVGNSSFGVPPQQPQQMYQPPVHQNHYMM
QHVSNNMPEQLPNGMLPRQQGGAGSLGVGYDQQAAPRYSQPSTPPSYGAVGGNPFG