Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u04235.002

ChromosomeExonStartStopDirection
chr1H1454317765454317262+
chr1H2454318681454318456+
chr1H3454321666454320645+


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
morexEMB28.949314.879918.255
morexETI62.113153.119663.4002
morexLEA21.055322.550844.2377
morexEPI24.127129.992323.3631
morexROO50.824330.637412.648
morexROO224.036632.761530.2814
morexNOD115.159194.301142.099
morexRAC80.930673.955975.6757
morexINF110.28112.971917.8923
morexINF215.257416.568420.9619
morexCAR521.737526.145725.8562
morexCAR151.761763.046993.03246
morexLEM82.087475.650869.6297
morexLOD64.422256.556277.9171
morexPAL63.106172.180680.1446
morexSEN39.660451.488853.0937



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os05g33880.2 +1 9e-42 149 83/125 (66%) protein|cysteine proteinase inhibitor precursor protein, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g25507.1.p +1 4e-47 164 95/117 (81%) pacid=32774294 transcript=Bradi2g25507.1 locus=Bradi2g25507 ID=Bradi2g25507.1.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 (1752 bp)

>BART1_0-u04235.002 1752 150831_barley_pseudomolecules
CCATCGTCCAACCACAAGCGTGTCGCAATCGACTAGAAGACGTTAACTTGCACTAGAAAT
ATTCCGCGCTAACCAAACACGAGATTCGCCGGACAAATCGGCTCCGATCCACCGCCCGAT
CCGGGCCGTGGACGTCTGGGATGCCTCGATCCGTCGCTGTCCCCCACACGCCAACCGAAC
CTGCCCCACTCGCTTTCCCCAACCCAAGAAGCAACGCGACGCAAGCAGGCAGGCAGACAG
CCACCACACGCCGACGCCAAACCCCGCGAACCAATCGGGAGCTCGGGAGGAGCGACGATG
GCCCGCCGCAGCGGCTGCTCCGTCGGCGCCGCGCTCCTCGCCCTCGCCGCCCTCCTCGCC
GCCTCGGCCGTCCCCGGGGCCGCCGGGTTCCACCTCGGCGGCGACGAGAGCGGCCTCGTG
CGGGGCATGCTCGCCGCCGTCCGCGAGCGGGCCGAGGCCGAGGACGCCGCGCGCTTCGCC
GTCGCTGAGCACAACAGGAAGCAGGGTTCTGCATTGGAGTTTACACGGGTTGTGGACGCG
AAAAGGCAAGTGGTTGCTGGGACCTTGCACAACCTGATGGTGGAGGTAGTGGATTCTGGA
AAGAAAAGTATGTACAAGGCAAAGGTATGGGTGAAGCCGTGGCAAAATTTCAAGGCGGTT
GTCGAGTTCCGTCATGCCGGGGACTTCCAGTCTGAGTCTTCCGTTGCTTCTGATGGTAGC
ACTGGGCAAGGCACACAAGGCGTGAAGGTTGCTTCCATGGAGTATGGAACTGGAAGGCGT
GAAGGTCGGAACATGAGGTTCTGAAATGTAGCTGCCAGCAACTTGTGAACTTAAGTACTA
CTAGTAGTTTCCCCTGTGCAAAGTTTTTATCCACCGTTAGTCTGTTATCAAAGTCTTCAT
CCCCTGTTAGATAGTACTACTATATGCTGTCACACGGACATTCTTTGAGCTTTTGACAGT
TTGACGTCTGAACTCTGTATATTTGTTTTAAAACGTGGTGACTCTGTATATTACATACTG
TTCATGCCCAGGTAAGTACATTATGGCATTATTAGTGTTGCCTTCATTTGTTCATTCATG
TCCCGAAGGACAAGGCATGTGTTCGGTGAACCTACATATATACAAGTCACCACTCGCTTT
GTATAAAAAATGTAAGACCTTTTTTGACAGTGACGTTGCCAAAAAAAAACGTCTTATATT
CTAAAGGGTCGTCAAAACTCAATACAAAACCAAGATCTTTACATGATTGAATATGTTAAT
GCATTTTGTATTATGTGAATGAATTTATCTTCGCATTATCAATTATCTTAAACAAGGAGC
AGAACTTGGCGCCATTTCATGTGCACTTCCTCTCCTCTTCGAGAAGATTTTTCTAGATAA
AAAGGCTTGAGACGTGTTCGACTTTTAATTAACAAAGCCATCAATCGATCAAGGATATAA
TGAGATTTTGAATTAACACAATGCCAAGGATTACAATAGACTTTGAATTAACAAAACCAT
CAACCGTCCAGGAATTACAAGGTTCGTGAGCAGCTTACAACACAACTTAGCAAGCACAAA
TGGTGTTGCCCACTACACTCCCCAAGAACTACAAGTAGAAGAGGAGCAGAGGATCATCCG
ATTGCCACGGGGAAGATCAAGACCATGGCTGCTCCACTGGGCTGAGAAGAAGCAACTCCT
TCCTTCTCTACTGCCGAAGAGGGCCCCAACCCTCACGTCCTGGCAGGACGCCACACCGTT
GGTAAGAAGAGG



Protein Sequence (168 aa)

>BART1_0-u04235.002 168 150831_barley_pseudomolecules
MARRSGCSVGAALLALAALLAASAVPGAAGFHLGGDESGLVRGMLAAVRERAEAEDAARF
AVAEHNRKQGSALEFTRVVDAKRQVVAGTLHNLMVEVVDSGKKSMYKAKVWVKPWQNFKA
VVEFRHAGDFQSESSVASDGSTGQGTQGVKVASMEYGTGRREGRNMRF