Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u14701.001

ChromosomeExonStartStopDirection
chr2H1698441756698441290+
chr2H2698442073698441933+
chr2H3698442289698442184+
chr2H4698442484698442385+
chr2H5698443523698443478+
chr2H6698444659698443957+


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
morexEMB13.76319.1494114.3167
morexETI6.716356.936547.46759
morexLEA5.879315.868557.60777
morexEPI2.927075.344975.29572
morexROO12.66825.981714.07703
morexROO217.135315.946713.8243
morexNOD10.969711.075612.6491
morexRAC14.268610.55210.9279
morexINF115.927614.276114.0576
morexINF215.994819.863616.0991
morexCAR58.7117212.61079.87659
morexCAR152.786351.176692.70053
morexLEM8.10668.221378.71702
morexLOD9.9217911.82557.44386
morexPAL11.465410.14169.47479
morexSEN7.5551112.2529.95171



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os04g50864.1 +2 8e-94 283 138/159 (87%) protein|expressed protein
TAIR PP10 AT1G68310 @ ARAPORT
AT1G68310.2 @ TAIR		 +2 1e-71 225 111/153 (73%) Symbols: AE7 | Protein of unknown function (DUF59) | chr1:25599812-25601239 FORWARD LENGTH=157
BRACH PP3 Bradi1g72250.4.p +2 1e-96 290 141/159 (89%) pacid=32792585 transcript=Bradi1g72250.4 locus=Bradi1g72250 ID=Bradi1g72250.4.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 (1563 bp)

>BART1_0-u14701.001 1563 150831_barley_pseudomolecules
GTTTTTGCACATATTTTATTTTGTTTTAATGTAAATATTATCAGTGTTAATTTATCAGTA
TTAATTTATAAATCGGGTGGCAAAGGTGGGTAAATATTCTACAACTTCTAGGGGGCATTC
GAAAATGGTTGGTTGAGAAATTGAAAAAGTTAGGGTCAGACGACTGCAAAACGATTCATC
ACGGTGAAAGGAGCCACGAGGAGAGCCTCCCACCTCCGATCCCGATCTGAAAAAAAACCC
TCGGCCACACAGGGGCCGCTAGGGTTCCCGCCGCCTCCACCGCCCCCCCGCCGGCACTCC
GCCGCCGCAGCCGCACGTCCAGCCGGCCTAAACCTCCTCTGCCCCGCCTCACGCGCCTCC
CTGGAGCAGCCGCGCCCGCCCAACAGGGCCGAGGCCTAGCAGCGGCGTCGTGGATTGGAG
TTGCCGCTCCCACCAAGCAGCGCCTCCCCCCGGAGCTCCGCCGGCAGAGCATTGCAGAGG
GAAAATAGTAATGGAGTTGATAAATGCTAACCCTGTGATTCATGAGAAAAGAGAGAGGCG
CACCCGTCAGGCACCAGAAGACATAGATGAAAATGCAACAGAGGCCATAGACCAGCTTGA
GATATTTGATCATATTAGAGACATAAAGGACCCAGAACATCCATACTCATTGGAAGATCT
TAATGTGGTAAATGAAGACTCGGTCGAAATCAATGATGAACTTAGTCATGTCAGGGTTAC
TTTCACCCCAACAGTGGAGCATTGCAGTATGGCCACTATCATTGGCCTTTGCTTACGTGT
GAAGCTGATGCGGAGTCTTCCACCTCGTTACAAGGTGGACATACGGTTGACTCCTGGATC
ACATGCAACTGAAGCTGCCGTGAACAAGCAACTGAGCGACAAAGAACGTGTGGCGGCCGC
GCTGGAGAATTCAAACCTGCTGGACATAGTGGAGGAATGCTTGTCACCGACGCTCGGTTG
AGACCTGAGTAGGACTGGAAACCAGTGTGTGGATATATTCCTAGACCACAACAGATATTT
GAGAAGAATTATAGGCGGTGCAGGACGTGTGCATGAATTTTGAGGCCCCATGCCTCTCTG
TAAGCACATTGCTGCTGCTTCAGCTCTCGTATCGTAGTGGTAGTATGTAGGTCGTCGAGT
GCTGCTATTTTTTTCTTGGAAGAACTGGGTGCTGCTACGTTTTTGTACGGTCCTGATTGT
ACATTGAGGGATAATAGTGCGGTGATCCGTGCCGTCTCTAAAATTCTGTCTGGGTTACTG
TTATCCTGGGTCATGAATTGAATATATCATGCTTATCCTTTTATTTGAACTTGATGTTTT
ATCCTTTTTTATTTAGTCGTGCTCGAGTTGCTGAAGAAAAAATAAAAGGGCAGCACTACT
GAGGGATGGTGTGGTGATCCGTGCTGTCTCGTGTCTATGTCCAGCATAACCGTTCTCCTC
GGTCATTATTTCACAATCATGTTTGAATAGAATTGTTTTCTCTTCTGTTTAGATTTTATT
ATAAATATATGTGTTTTTTTTTTGAGCGGGAGATCTTTGTGTTTGGTCTTGAATCCAATG
TTG



Protein Sequence (156 aa)

>BART1_0-u14701.001 156 150831_barley_pseudomolecules
MELINANPVIHEKRERRTRQAPEDIDENATEAIDQLEIFDHIRDIKDPEHPYSLEDLNVV
NEDSVEINDELSHVRVTFTPTVEHCSMATIIGLCLRVKLMRSLPPRYKVDIRLTPGSHAT
EAAVNKQLSDKERVAAALENSNLLDIVEECLSPTLG