Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u26461.005

ChromosomeExonStartStopDirection
chr4H11355329313552714-
chr4H21355433013554251-
chr4H31355458213554412-
chr4H41355570813555595-
chr4H51355627013556187-
chr4H61355771813557579-
chr4H71355979013559662-
chr4H81356175213561081-


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
morexLEA000
morexEPI000
morexROO0.000000011519700
morexROO20.00002299250.3592380.568667
morexNOD000
morexRAC000
morexINF1000.901921
morexINF20.58842200.562999
morexCAR5000
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN0.00026302800



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g29210.1 +3 2e-84 271 154/297 (52%) protein|ankyrin, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g23634.1.p +3 1e-90 287 157/297 (53%) 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 (1970 bp)

>BART1_0-u26461.005 1970 150831_barley_pseudomolecules
ACCATCTGCCGTGGTGCGGGTGGACGCAGGCGTTTCCTCCAATAAGCTCGAGTGGCTCCC
CGATTTGGAGAAGGGCCCGGTCGCCTCTATCGTTGTTCGTCGCCACCATGGGTGTGGTAA
GCGAGTTTGCGATGGGTGCGATGCTGGATCCCGCTGACAGGTTTCAAGCTCATCAGCAGC
GGCTGTTCTGGCGGGGCTACGGCGCCGGTTCTCAGTTCATGGCGTGGCTGTGCTGTTGCG
AAGGCATTGTGGCCCGAGGTGGTTCGTCCCGGGCGACGGCAAAGATTTCATCCGCGAAGA
AGCCGTAGAGGACCTGATTGCAATTTTGCTTTCCGGCCCGGGGTCCTCCTTGTAAAAGCC
AGGGACTTTAATGCTATTTCCTTTTCTGCTGAGTCCTTATATGCTCTTTGTACCGTAACT
GTATCAGATATTAACGGAGCGTCTAGGCCCTTCGCGGCCTTTACAGTTAAAAAAAAAAGA
AAAAAAGAAAGACGACGGCGCTCGCTCGCCCATTTTCACTTGTCCTCGCGCTCGCGCGTA
CGCCTCGCTTTAGTTTCGTCTTCCTCGCTGCTCTTTTCTCCATTCAAAGCTCCAAGCCCC
TTCTCCACCCCCACCCTAGCACATCCTCCTCGACCGACGCCATGGTGTCGCCCTACCGAG
CTCATTCCGAAGGTAGAACACCTCTGTTTTTTGCAACATACTGCAATGGGGGTACTGCTG
AGTATCTTCTTGATCATGGAGCTAATCCAGACAAAGCCGATAACAATGGGGGTTTCCTGT
TACATTATGCTGCTGAAATAGGTAGTTGTGAAATGGTAGAGCTTTTGCTTGCAAAAGGAG
CTTACGTTGACCCGGTATGTGCTCGTGGAACACCACTTCATATTGCTGCTGGTGGAGGGC
AGTATGGTGCTATGAAGATTTTATTGGACCACAGTGCAGATTACAACAAGATGGTAGATG
GTGTGACACCTCTTATGGCTGCTAAAGATGCCAACTCAACGGAATGTATCAAGCTCCTAG
TTAAGGTTCAGAAGGAGCCTATGCTTAAACGAGAAATCACGGCATCAGAGCTTATATCAC
TAGGGAGTATCTCTTTAAAGAAAAAAGATTATGTTGTCGCAGCAAAATTGTACAGTCAGG
CAATGCAGCTTGATCCTGGTGATGCAGTCTTGCTCTCAGACAGGAGCCTTTGTTGGCTTC
ACATGGGATATGGAAGAAAGGCTTTGCTAGATGCTAATCAATGCAGAAAAATGCGGCCTC
TCTGGCCAAAAGCTTGTCGCCGGCAGGGTGAAGCTCTGATGCTACTGAAGGACTATGAGG
GTGCAAGTGAACGGTTCTTGGATGGACTCAAATTGGACCCAGTGGACACTGCTATCGAGG
ATGCATTACGGGAAGCTATGAAGTCCTTGATGACGTCTCGGAGCACGAAAGCCAATTGAC
TATTTGCGTGTCGCAGGGAAATCAGCTGAAGACTTGAAACGGGTCAGGAGTTTCTCCATT
TTGCGCAAAGACCGATTTCCTTTAGAAAGTAAAGCGACGTGTCTCATGGCCTGATGAGAG
TGTATTACCGTCGGCATGTTTTGTATGAGCATGACTGTTGATGCTTGCAGTAGTACCCCG
CGGAAACTCGTCAGTTGCCATCTATCTGTCGTGTATTACAGGCTCTTATGTCAGGTATTT
GGGTCTTCTGAAGCTCACTCGTCTGCCGCTCCTGGTGCAGCGTCCCCGAATGATCGCAGC
CTCTGCATTTGTCTTGTTGCGGTTTTGCTGAATTGCCTCCTGGCTCTGTAGTGTTTTAAC
TACTCAACGATGGTACAATGTAGTGAAGATGGAGATATCTTGTGTAGGTTTTCTTCGTCC
TGTGGGTGCATAATTAGAGGAGCGTGATGTAGGCTAAGTTTTGGTAGCTGCTATCCCGTC
TTGTTTTCCTGACTTCAGCTGGTTGCTGTGTGGGCTCAATGGCATNNNNN



Protein Sequence (265 aa)

>BART1_0-u26461.005 265 150831_barley_pseudomolecules
MVSPYRAHSEGRTPLFFATYCNGGTAEYLLDHGANPDKADNNGGFLLHYAAEIGSCEMVE
LLLAKGAYVDPVCARGTPLHIAAGGGQYGAMKILLDHSADYNKMVDGVTPLMAAKDANST
ECIKLLVKVQKEPMLKREITASELISLGSISLKKKDYVVAAKLYSQAMQLDPGDAVLLSD
RSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEALMLLKDYEGASERFLDGLKLDP
VDTAIEDALREAMKSLMTSRSTKAN