Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u26461.010

ChromosomeExonStartStopDirection
chr4H11355329313552715-
chr4H21355433013554251-
chr4H31355458213554412-
chr4H41355570813555595-
chr4H51355627013556187-
chr4H61355771813557579-
chr4H71355979013559662-
chr4H81356083513560539-
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
morexEMB000
morexETI000
morexLEA00.2557780
morexEPI00.0694250
morexROO0.000044202400
morexROO20.2866840.2255090
morexNOD000
morexRAC000
morexINF1000
morexINF2000
morexCAR500.4012080
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g42350.1 +2 3e-96 300 192/433 (44%) protein|ankyrin, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g23634.1.p +2 5e-110 335 212/430 (49%) 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 (1770 bp)

>BART1_0-u26461.010 1770 150831_barley_pseudomolecules
CCTCGCTGCTCTTTTCTCCATTCAAAGCTCCAAGCCCCTTCTCCACCCCCACCCTAGCAC
ATCCTCCTCGACCGACGCCATGGTGTCGCCCTACCGAGCTCATTCCGAAGTCCACGACCC
GATGCTGGACATGGTCTTCCAGGCGGCATCCGACAACGACCTCCCCCGCTTAAAGTCGCT
GGTCGTGATGCTGGACTTGGGCAGGGGCCGCCCCAAGAAGGTGATTGAGGACTTGAGGGT
GGAAGACGATCCCAAGCTTGAAGGTTTCAGCGCGCTGCACATCGCGGCCAGGGGGAGCCT
GGAGGTGTGCAGGTACCTCGTCGAGGAGCTGCTGGTGGATGTGGATCTGGTCGACAAGGA
AGGTCCAACTATCTTCAAAACCCTAATCTTTCGGTGCAGGCTTCGTCGAATTGCATGGAG
TGCCTATTTTACATGCTGGAATTTGTTGTTCGCTAGGGCTGCTTCATCTGTAGGTAGAAC
ACCTCTGTTTTTTGCAACATACTGCAATGGGGGTACTGCTGAGTATCTTCTTGATCATGG
AGCTAATCCAGACAAAGCCGATAACAATGGGGGTTTCCTGTTACATTATGCTGCTGAAAT
AGGTAGTTGTGAAATGGTAGAGCTTTTGCTTGCAAAAGGAGCTTACGTTGACCCGGTATG
TGCTCGTGGAACACCACTTCATATTGCTGCTGGTGGAGGGCAGTATGGTGCTATGAAGAT
TTTATTGGACCACAGTGCAGATTACAACAAGATGGTAGATGGTGTGACACCTCTTATGGC
TGCTAAAGATGCCAACTCAACGGAATGTATCAAGCTCCTAGTTAAGGTTCAGAAGGAGCC
TATGCTTAAACGAGAAATCACGGCATCAGAGCTTATATCACTAGGGAGTATCTCTTTAAA
GAAAAAAGATTATGTTGTCGCAGCAAAATTGTACAGTCAGGCAATGCAGCTTGATCCTGG
TGATGCAGTCTTGCTCTCAGACAGGAGCCTTTGTTGGCTTCACATGGGATATGGAAGAAA
GGCTTTGCTAGATGCTAATCAATGCAGAAAAATGCGGCCTCTCTGGCCAAAAGCTTGTCG
CCGGCAGGGTGAAGCTCTGATGCTACTGAAGGACTATGAGGGTGCAAGTGAACGGTTCTT
GGATGGACTCAAATTGGACCCAGTGGACACTGCTATCGAGGATGCATTACGGGAAGCTAT
GAAGTCCTTGATGACGTCTCGGAGCACGAAAGCCAATTGACTATTTGCGTGTCGCAGGGA
AATCAGCTGAAGACTTGAAACGGGTCAGGAGTTTCTCCATTTTGCGCAAAGACCGATTTC
CTTTAGAAAGTAAAGCGACGTGTCTCATGGCCTGATGAGAGTGTATTACCGTCGGCATGT
TTTGTATGAGCATGACTGTTGATGCTTGCAGTAGTACCCCGCGGAAACTCGTCAGTTGCC
ATCTATCTGTCGTGTATTACAGGCTCTTATGTCAGGTATTTGGGTCTTCTGAAGCTCACT
CGTCTGCCGCTCCTGGTGCAGCGTCCCCGAATGATCGCAGCCTCTGCATTTGTCTTGTTG
CGGTTTTGCTGAATTGCCTCCTGGCTCTGTAGTGTTTTAACTACTCAACGATGGTACAAT
GTAGTGAAGATGGAGATATCTTGTGTAGGTTTTCTTCGTCCTGTGGGTGCATAATTAGAG
GAGCGTGATGTAGGCTAAGTTTTGGTAGCTGCTATCCCGTCTTGTTTTCCTGACTTCAGC
TGGTTGCTGTGTGGGCTCAATGGCATNNNN



Protein Sequence (386 aa)

>BART1_0-u26461.010 386 150831_barley_pseudomolecules
MVSPYRAHSEVHDPMLDMVFQAASDNDLPRLKSLVVMLDLGRGRPKKVIEDLRVEDDPKL
EGFSALHIAARGSLEVCRYLVEELLVDVDLVDKEGPTIFKTLIFRCRLRRIAWSAYFTCW
NLLFARAASSVGRTPLFFATYCNGGTAEYLLDHGANPDKADNNGGFLLHYAAEIGSCEMV
ELLLAKGAYVDPVCARGTPLHIAAGGGQYGAMKILLDHSADYNKMVDGVTPLMAAKDANS
TECIKLLVKVQKEPMLKREITASELISLGSISLKKKDYVVAAKLYSQAMQLDPGDAVLLS
DRSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEALMLLKDYEGASERFLDGLKLD
PVDTAIEDALREAMKSLMTSRSTKAN