Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u20608.003

ChromosomeExonStartStopDirection
chr3H1358149252358149013+
chr3H2358149679358149564+
chr3H3358149891358149809+
chr3H4358150395358150265+
chr3H5358152519358152355+
chr3H6358152688358152595+
chr3H7358153398358153224+
chr3H8358153832358153493+


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
morexEMB34.917633.197125.0884
morexETI18.353220.238916.9471
morexLEA23.208523.356224.8316
morexEPI16.536125.9222.7885
morexROO20.661520.801112.5066
morexROO223.918620.863426.0345
morexNOD19.222913.224321.2048
morexRAC17.874420.200618.3937
morexINF133.842738.485439.6176
morexINF232.293931.667426.9003
morexCAR528.50830.988432.3574
morexCAR156.597086.449028.01015
morexLEM19.332718.430720.0522
morexLOD17.879322.587714.1792
morexPAL20.013617.26617.6375
morexSEN28.619326.20629.2097



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g39790.1 +3 2e-140 404 203/276 (74%) protein|esterase/lipase/thioesterase, putative, expressed
TAIR PP10 AT1G29840 @ ARAPORT
AT1G29840.1 @ TAIR		 +3 1e-97 293 143/250 (57%) Symbols: | alpha/beta-Hydrolases superfamily protein | chr1:10445735-10447422 REVERSE LENGTH=263
BRACH PP3 Bradi2g41780.1.p +3 1e-159 452 222/270 (82%) pacid=32782108 transcript=Bradi2g41780.1 locus=Bradi2g41780 ID=Bradi2g41780.1.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 (1344 bp)

>BART1_0-u20608.003 1344 150831_barley_pseudomolecules
ATTGGGTCCATCCAATGTAGCGCCTTCCTAGTGCGTTCTTTTCTTTGTACACCTTAAATT
CCACGCCCTCCTCTGGCGTCCTCCACTTGCCCGGCGAATCTAACCTTCATCCTGCTGCTG
CCACCGCCGGCGGGTCGACTAGACTCGGGTTCCTCCCACCCCAAACAGCACGAGGCTGCC
GCCGCCATCTGTCTTCCATGTCACAGCCGCTCAATTCCTCCCGGCATGCTTCCAATCCCC
ATGCTACACAGAGGGTATTGATAACGAACAAGCGTGGAGAGAAACTTGTGGGGCTACTGC
ATCCCACGGGTTTGAACAAGATTGTAGTCTTGTGCCATGGCTTTACGGCCTCCAAGAGTT
CTGGCATTATTGTTGATCTGGCAGATGCAATAATAAAAAAAGGGATTAGTGTCTTTCACT
TTGATTTCAGTGGAAACGGAGAGAGCGAAGGCGAATTCCAGTATGGCAACTACAGGAAAG
AGGCTGAAGACTTGCATTCTGTTGTCTCATATCTGTATCAGGAGAAGTATGATGTAGCAG
CTGTTGTTGGTCACAGCAAAGGTTGGTGATGAGGAGATGTGGTTGTTCTTTATGCTTCCC
TATATGACGATGTCCACATGGTTGTTAACCTATCTGGCCGATTTTATTTGGAGAAAGGCA
TTGAGGAACGCCTAGGGAAGGAATTTCTTGACAGAATAAATAAGGAAGGTTACATTGATG
TCACAAACAAGTCAGGAAATATGTTATACAGGGTAACAAAAGAGAGCTTGATGGAACGAC
TCAACACTGACATGCGTGCAACGAGCCTCTCCATTAGCAAGGAATGCAGCTTCTTCACAG
TTCATGGTTCTGCTGATGACATCATTCCGGTGGAAGATGCATATGAGTTTGCAAAGCATA
TACCAACCCACAAACTCTGTGTCGTCGAGGGAGCAGATCACTGCTACACCAGACATCGTA
AAGAACTTTCAGATGCTGTAGTGGGTTTCATTACATCCAACAAGGCCAGGGATACCACGC
TAGAAGATCAATGAATTCTGATGGATTTATGCTGTAGGATTTTGTACAGCAGTTCTCTTT
ACAGAAGCTCCCCTCAGAACAAGGCAATTCTAGATCATGGTCATTCTACTTCTTAGTTCC
GGGATGTAATAAGCAATAAAGCATTGCAAGGCTTTAGGTTTGCGTTATTTTATGGGGACT
GCTATGCGTCGGTCCCTTCCAGTGGGATGCACATTTTTCTATTTTGCAACAAAGACCTTG
TTGCAGAAACATTTATAACGGAGATTGTGTTGGAGAATTTTTATGTAACAGAGGTTGTGT
TGCGATTTTTTTTTGCAAGAGAGA



Protein Sequence (138 aa)

>BART1_0-u20608.003 138 150831_barley_pseudomolecules
MVVNLSGRFYLEKGIEERLGKEFLDRINKEGYIDVTNKSGNMLYRVTKESLMERLNTDMR
ATSLSISKECSFFTVHGSADDIIPVEDAYEFAKHIPTHKLCVVEGADHCYTRHRKELSDA
VVGFITSNKARDTTLEDQ