Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u34104.001

ChromosomeExonStartStopDirection
chr5H1153862295153861918+
chr5H2153862536153862411+
chr5H3153863058153862750+
chr5H4153863520153863237+
chr5H5153864517153863622+
chr5H6153864958153864902+
chr5H7153865370153865323+
chr5H8153866854153866177+


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
morexEMB15.995610.122717.1706
morexETI8.55786.013596.87312
morexLEA9.407717.650426.76931
morexEPI4.994183.732875.36115
morexROO9.81166.162473.68898
morexROO210.92939.812039.29541
morexNOD11.7676.575444.74689
morexRAC9.760837.6363910.7188
morexINF113.485613.87417.61211
morexINF28.538599.286513.7897
morexCAR59.6686310.99159.49947
morexCAR153.140114.025414.82575
morexLEM8.279535.861556.94079
morexLOD7.003097.639399.48713
morexPAL8.634047.457968.63417
morexSEN7.038826.935216.10496



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os12g34370.1 +2 0.0 1108 557/619 (90%) protein|adaptor complexes medium subunit family protein, expressed
TAIR PP10 AT2G20790 @ ARAPORT
AT2G20790.1 @ TAIR		 +2 0.0 679 354/619 (57%) Symbols: | clathrin adaptor complexes medium subunit family protein | chr2:8950162-8952613 REVERSE LENGTH=613
BRACH PP3 Bradi4g06100.1.p +2 0.0 1128 567/622 (91%) pacid=32785976 transcript=Bradi4g06100.1 locus=Bradi4g06100 ID=Bradi4g06100.1.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 (2776 bp)

>BART1_0-u34104.001 2776 150831_barley_pseudomolecules
GGGAGAACTAAATACAGAGAATCAAACAGGTTATACATCTTAATTTAAAAGCTGCATTTG
CTCAATCAGCATTACATGAGTCACGCTTGTGCTAGTCATGTCCGGCTACTACCCTGGCAA
ACACGCCCCAAATGACTTGGAATGCGTAAACTTCCAGGGAAGACGAAATCGTTAACAGGG
AGGCGGGTTTACGTTCGCGTACTCTTCCTGTCGTCTTCTCTACTGGTCCCTCGGAGTCTC
CGGCCATCCCATCCTAGAAACAAGCGCCAAATCCACAGCCACCGCGCGGCCACACCTCCG
GCGATCCATGTCCGGCGGTGGGTGCAGCGTCCGCGCAATCTGGATCCTCACGCCAAACGA
CGCGGTCGCCTTCTCCAGGCGGTTTGCAGTGGTGGAGAAGCGGTGGCGGGTCGCGTGGGA
GGCGGAGGGGGCGGGGAAGGGCGCGGTGATGCCGCTGCCGGCGGACTACGAGGTCGCCAC
CGCCTTTGCCAACCGCCGGAGAAGGGAAGGCACGGCCCGTGGCTCTGGTATCCGCACAAG
CTTATCATCCGTGGGATCGGATTCCTGGGTCGATGATCCAATCACTCGCCACATTATATC
CCTTCAAATTGACAAAGAGGAAGGGGGTGGGTTTATGCTGTGGCCAGTAGTTCTTCAGAA
ACGTGGAAGTTATTATGTCCTTGTGCTGCCTTTGGTGGATCCTCAGGCATTTAAAGCGTT
CGAGAGCCTACTGAAAAGACCTGACTGCGGGAGTTCAGCCAAAGAGAATGGCAATCTTTC
TTCCATTCTGCTCAATCTTCCGTGCATAACAGGGGCCTTTATGGTTGCGAATGTTATTGG
GGACATAGTTACCGGTGATGTTGCTGAACCAGAGGTGATCGTTACTTCGGGCCCCTCTGT
TGGTGGACTGTTAGATTCATTGACTGGAAGCATAGGTATTACAGCCCGGTCAAAACCTAT
CGCTGCACCTGTTGCAGCCCCAGTTGCATCAGTTTCTTCGCCTGTTGGTTCTGCTCAATC
AGACTCTTTAAAAGGTGGTATAAGACCTTTTGACAAGGAATTACTACGAAGCTTCATCAT
CGGTGCCATGCCTTTTGGCACACCTCAGGATCTTAATTATGGCAATGTTTCTTCGATTAG
AACAACCGGGTATTCAGCTGATCCTCTTCCGACAGACCAGAAGCAACCTGCCTGGAAGCC
TTACCTATACAAAGGGAGGCAACGGACTCTCTTTTCTAGCCTGGAGACTATAAACGCTGC
ACTATATGACCGTGATGATGTGCCAGATTTCCTTTCCGTTTCGGGACAACTAACCTGTAG
GGCTGAACTGGAAGGGTTACCTGATGTTTCTTTGCCACTGACTGGGTTAAAAACTGCCCG
TGTGGAGGTGTCATCATTCCACCACTGTGTTCAAGCTTCAGAAGCTACTGGTGATAAGCA
ATCTCTGCTATTTCAACCACCACTAGGAAATTTCGTTTTGATGCACTATCAAGCTCCATG
CAACATCGATCCACCTGTTAAAGGGTTCTATCAGTTATCTATGGTATCTGAGAATGAAGG
TGCTTTTCTATTTAAGCTGAGATTGATGGAGGGCTACAAGTCCCCGTTTCTTATGGAATT
TTGCATGGTTACAATGCCATTTCCTCGAAGAAGAGTTGCATCATATGACGGAAATCCATC
AGTTGGGACGGTTTCAATGACAGAGCATTTAATTGAGTGGAGAATTGTGTCAAGTGGCCG
GGGCCTCAGTGGTAGGAGCATTGAAGCTACCTTCTCTGGTACTGTTCGATTTCATCCTAG
AACAGCACAGCGAGTAAATTCATCATTTCGGTTGGTCGCAACCACTGCATTTGCTGAAGA
TAGTGATTGTGAGCAAGATAACACTAAGAATGGTGCCAACTTGGATGACTACCTCATGGA
AAAAATGAACAAAGACCTTCAAGCAGTTGACTTGGAAGAGCCGTTGTCTTGGCAGGCTTA
TAATTACGCTAAGGTGTCTTTTAAGATTGTTGGTGGCACCCTGTCTGGTCTTATAATCGA
CCCAAGATCTGTAACCGTTTACCCTTCTGTCAAAGCCCCAGTGGAATACTCAATGCAGGC
CTCTTCTGGAGACTACATACTATGGAATACCTTAGGAAAATGTCCTTCTGCAGCTTTGCC
AAAAGAATTATGATTGCCAGTGTTCAATCGCCAGGCACGGTCCTCAACGGTTTTTTGGTC
CCACCACAGAGCTGTGCTGGAAGTTTTCTCTTAGTTCTTATAATTAAGGAAATAGTGTTT
CAAGTGGGAAACAACAAATCTGTACATCATTTTTGTCAGACAAGTTTGGTATGCTGAGCT
TAGATTTCATGGCTCTATGCGATCTCGAATCCATGGTCTTCTCTTCTTAGCAATAATAAA
TTTTCTACAACACTGGGATTCTTTCCATTGTATCCAAATTTGATGCTCGTTGTAATGCTA
TTTCGATGATCACCGCTTAAATTCATGGTGCGTTGAGAAACTGGAGACGTGCCAAGCATG
ATCCAGATTTCTTTCTTTGTTCCGTTTAAATATGTTACTCTAGTATAAAGGTTTTCTTCC
ATTTACTGGTACGTACTCCCTTTGTTCCTAAATATAAGTCCTTGTAGATGTTTCACTAGA
AGACTATATACGGATGTATATAGACATCATTTAGAGTATAGATACATCCATTTTGCTCTG
TATGTAGTCCATAGTGAAATCTCAAAAAAGACTTATATTTAGGAACTGAGGGAGTAGTAT
GTATAATGGGGTGCAG



Protein Sequence (621 aa)

>BART1_0-u34104.001 621 150831_barley_pseudomolecules
MSGGGCSVRAIWILTPNDAVAFSRRFAVVEKRWRVAWEAEGAGKGAVMPLPADYEVATAF
ANRRRREGTARGSGIRTSLSSVGSDSWVDDPITRHIISLQIDKEEGGGFMLWPVVLQKRG
SYYVLVLPLVDPQAFKAFESLLKRPDCGSSAKENGNLSSILLNLPCITGAFMVANVIGDI
VTGDVAEPEVIVTSGPSVGGLLDSLTGSIGITARSKPIAAPVAAPVASVSSPVGSAQSDS
LKGGIRPFDKELLRSFIIGAMPFGTPQDLNYGNVSSIRTTGYSADPLPTDQKQPAWKPYL
YKGRQRTLFSSLETINAALYDRDDVPDFLSVSGQLTCRAELEGLPDVSLPLTGLKTARVE
VSSFHHCVQASEATGDKQSLLFQPPLGNFVLMHYQAPCNIDPPVKGFYQLSMVSENEGAF
LFKLRLMEGYKSPFLMEFCMVTMPFPRRRVASYDGNPSVGTVSMTEHLIEWRIVSSGRGL
SGRSIEATFSGTVRFHPRTAQRVNSSFRLVATTAFAEDSDCEQDNTKNGANLDDYLMEKM
NKDLQAVDLEEPLSWQAYNYAKVSFKIVGGTLSGLIIDPRSVTVYPSVKAPVEYSMQASS
GDYILWNTLGKCPSAALPKEL