Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u26461.011

ChromosomeExonStartStopDirection
chr4H11355329313552716-
chr4H21355433013554251-
chr4H31355457313554412-
chr4H41355570813555595-
chr4H51355627013556187-
chr4H61355771813557579-
chr4H71355979013559662-
chr4H81356083513560650-
chr4H91356100013560935-
chr4H101356119013561081-


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
morexEMB2.118290.5588642.86743
morexETI02.088923.34327
morexLEA1.788350.8454950.100721
morexEPI0.3568251.189790
morexROO01.829350.800916
morexROO21.727661.101791.75586
morexNOD1.854391.171780.000000036685
morexRAC3.98335.473446.24952
morexINF111.244611.778113.0848
morexINF219.217621.274314.3711
morexCAR53.816465.076021.48975
morexCAR150.44277700.00689353
morexLEM2.636931.102732.45146
morexLOD3.667694.505642.51706
morexPAL3.788742.378183.50521
morexSEN0.13329700.348846



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g42350.1 +2 4e-99 306 196/396 (49%) protein|ankyrin, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g23634.1.p +2 1e-114 346 211/393 (54%) pacid=32774779 transcript=Bradi2g23634.1 locus=Bradi2g23634 ID=Bradi2g23634.1.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 (1649 bp)

>BART1_0-u26461.011 1649 150831_barley_pseudomolecules
CCTCGCTGCTCTTTTCTCCATTCAAAGCTCCAAGCCCCTTCTCCACCCCCACCCTAGCAC
ATCCTCCTCGACCGACGCCATGGTGTCGCCCTACCGAGCTCATTCCGAAGTCCACGACCC
GATGCTGGACATGGTCTTCCAGGCGGCATCCGACAACGACCTCCCCCGCTTAAAGTCGCT
GGTCGTGATGCTGGACTTGGGCAGGGGCCGCCCCAAGAAGGTGATTGAGGACTTGAGGGT
GGAAGACGATCCCAAGCTTGAAGGTTTCAGCGCGCTGCACATCGCGGCCAGGGGGAGCCT
GGAGGTGTGCAGGTACCTCGTCGAGGAGCTGCTGGTGGATGTGGATCTGGTCGACAAGGA
AGGTAGAACACCTCTGTTTTTTGCAACATACTGCAATGGGGGTACTGCTGAGTATCTTCT
TGATCATGGAGCTAATCCAGACAAAGCCGATAACAATGGGGGTTTCCTGTTACATTATGC
TGCTGAAATAGGTAGTTGTGAAATGGTAGAGCTTTTGCTTGCAAAAGGAGCTTACGTTGA
CCCGGTATGTGCTCGTGGAACACCACTTCATATTGCTGCTGGTGGAGGGCAGTATGGTGC
TATGAAGATTTTATTGGACCACAGTGCAGATTACAACAAGATGGTAGATGGTGTGACACC
TCTTATGGCTGCTAAAGATGCCAACTCAACGGAATGTATCAAGCTCCTAGTTAAGGTTCA
GAAGGAGCCTATGCTTAAACGAGAAATCACGGCATCAGAGCTTATATCACTAGGGAGTAT
CTCTTTAAAGAAAAAAGATTATGTTGTCGCAGCAAAATTGTACAGTCAGCTTGATCCTGG
TGATGCAGTCTTGCTCTCAGACAGGAGCCTTTGTTGGCTTCACATGGGATATGGAAGAAA
GGCTTTGCTAGATGCTAATCAATGCAGAAAAATGCGGCCTCTCTGGCCAAAAGCTTGTCG
CCGGCAGGGTGAAGCTCTGATGCTACTGAAGGACTATGAGGGTGCAAGTGAACGGTTCTT
GGATGGACTCAAATTGGACCCAGTGGACACTGCTATCGAGGATGCATTACGGGAAGCTAT
GAAGTCCTTGATGACGTCTCGGAGCACGAAAGCCAATTGACTATTTGCGTGTCGCAGGGA
AATCAGCTGAAGACTTGAAACGGGTCAGGAGTTTCTCCATTTTGCGCAAAGACCGATTTC
CTTTAGAAAGTAAAGCGACGTGTCTCATGGCCTGATGAGAGTGTATTACCGTCGGCATGT
TTTGTATGAGCATGACTGTTGATGCTTGCAGTAGTACCCCGCGGAAACTCGTCAGTTGCC
ATCTATCTGTCGTGTATTACAGGCTCTTATGTCAGGTATTTGGGTCTTCTGAAGCTCACT
CGTCTGCCGCTCCTGGTGCAGCGTCCCCGAATGATCGCAGCCTCTGCATTTGTCTTGTTG
CGGTTTTGCTGAATTGCCTCCTGGCTCTGTAGTGTTTTAACTACTCAACGATGGTACAAT
GTAGTGAAGATGGAGATATCTTGTGTAGGTTTTCTTCGTCCTGTGGGTGCATAATTAGAG
GAGCGTGATGTAGGCTAAGTTTTGGTAGCTGCTATCCCGTCTTGTTTTCCTGACTTCAGC
TGGTTGCTGTGTGGGCTCAATGGCATNNN



Protein Sequence (346 aa)

>BART1_0-u26461.011 346 150831_barley_pseudomolecules
MVSPYRAHSEVHDPMLDMVFQAASDNDLPRLKSLVVMLDLGRGRPKKVIEDLRVEDDPKL
EGFSALHIAARGSLEVCRYLVEELLVDVDLVDKEGRTPLFFATYCNGGTAEYLLDHGANP
DKADNNGGFLLHYAAEIGSCEMVELLLAKGAYVDPVCARGTPLHIAAGGGQYGAMKILLD
HSADYNKMVDGVTPLMAAKDANSTECIKLLVKVQKEPMLKREITASELISLGSISLKKKD
YVVAAKLYSQLDPGDAVLLSDRSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEAL
MLLKDYEGASERFLDGLKLDPVDTAIEDALREAMKSLMTSRSTKAN