Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u35721.004

ChromosomeExonStartStopDirection
chr5H1405760297405760042+
chr5H2405760512405760450+
chr5H3405761523405761364+
chr5H4405762633405762486+
chr5H5405762807405762730+
chr5H6405763442405763358+
chr5H7405764150405763535+


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
morexEMB16.35165.586785.92408
morexETI17.860618.252712.8958
morexLEA5.260132.049256.00126
morexEPI8.3795121.642210.454
morexROO11.13888.054013.53116
morexROO263.04770.630261.4109
morexNOD80.8277131.6838.6707
morexRAC81.467476.201267.142
morexINF12.059343.025912.04873
morexINF201.881370.462422
morexCAR510.333913.8879.70429
morexCAR152.484991.03162.74907
morexLEM34.019925.763149.0255
morexLOD88.085785.1898100.869
morexPAL84.478380.544384.4014
morexSEN17.332224.949523.0754



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g21250.2 +2 2e-99 297 171/183 (93%) protein|clathrin adaptor complex small chain domain containing protein, expressed
TAIR PP10 AT3G09800 @ ARAPORT
AT3G09800.1 @ TAIR		 +2 2e-72 226 127/178 (71%) Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179
BRACH PP3 Bradi4g08770.4.p +2 2e-104 309 178/183 (97%) pacid=32783612 transcript=Bradi4g08770.4 locus=Bradi4g08770 ID=Bradi4g08770.4.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 (1406 bp)

>BART1_0-u35721.004 1406 150831_barley_pseudomolecules
GGCCAGCGGGCCTGTTGGAGTAGCTAAACTAACCAGCTCGTCCATTTCCGCTCGCCTAAT
CCCTCCCGTCTTTCTCTACACTCGTCTGCTGCATCTCAGATCTCGCGGGCACCAACAAAC
CAAAGCAAAGCTCTCCCGCTGTCCCGATCACTCTCCCTTCCAGGTAACTCCTCCTCTCTA
GATCTCCCCCACCTCCATCCTCGGCAAGTCTCAGCTGATTAATCCCATGCGCGCGTTCGC
TACCTGTGATCCGCGCGAAGCTTGGACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGC
CATGGGGGAATTCTCCAAGGAATCTTGCCCGTCTGTGAAGAACATTTTGCTACTGGATTC
TGAGGGAAAGCGCGTTGCTGTGAAGTACTTCTCGGATGATTGGCCGAACAACGCATCTAG
GTTGACCTTTGAAAAGTCCATTTTTACTAAAACTCTGAAGACAAATGCACGCTCAGAAGC
TGAGATAACATTGCTTGATGGTAATATTGTTGTTTACAAGTTTGTACAAGACCTTCACTT
CTTCGTCACTGCCGGAGATGATGAGAATGAGCTAATCATAGCAAATGTGCTACAGGGTTT
TGCTGATTCGGTTGGTCTTCTACTCAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAA
CTTGGACTTGATACTTCTCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAAC
AGATGCGAATACCATTGCGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTT
CTCTGAGCAGACAATATCCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCT
TCTGAAGTGAGAAACCACTGCTTCTTCTGTCACCCCTGTTACAACTTGTGTGTGTTTGAG
GTCTGGCTACTATGCTATAGGCCTGGTAGCGGTCACTTAACCAGAAGCGCAACTGTGACA
GACAGATTTGTCTGGATTCTTCTTAAATGATATGTAATACTATTTTCTCGTCAAATGCAT
GCTGCGTGTCGTACATTTTCTGGAGGTATAGAGAAATAATTTTTGACGTTAATCCAATTT
CTGCTAAATAACACTCTTCTCAAACCGGAAAGGGCGGATATCGCTTCAACTTTTTTTTTT
TTTTTTTGCCTTTCGTTTATTTCTTTACAAGAATTATGTGTGTTCCCAAGCATGAGCCAG
AAGTGGCCTTATTGATGAAGCGTTATTGCTAGGGGTGTTATGTTAGGAGATGAACCTCTG
AAGTCTTATAGGCAGCCCAAATGTGTGCAAGAGGGATGTTTAGCCTCCCGTACAATAGTC
ATTGAGACAAGTGCCGAATATTCTATGTTAGCCTTCACGGGAGAAAAAAATGAAATTAAA
GGGACCAGAGGAAAATTGAAGGAAGA



Protein Sequence (182 aa)

>BART1_0-u35721.004 182 150831_barley_pseudomolecules
MGEFSKESCPSVKNILLLDSEGKRVAVKYFSDDWPNNASRLTFEKSIFTKTLKTNARSEA
EITLLDGNIVVYKFVQDLHFFVTAGDDENELIIANVLQGFADSVGLLLRGDVEKRTALEN
LDLILLCIDEIIDGGIILETDANTIAGKVATNAADGSVPFSEQTISQALATAREHFARSL
LK