Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u04235.001

ChromosomeExonStartStopDirection
chr1H1454317765454317262+
chr1H2454318681454318456+
chr1H3454319154454319063+
chr1H4454321666454320645+


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
morexEMB21.16767.7161911.2926
morexETI33.103133.689133.8862
morexLEA21.170115.772318.457
morexEPI27.321720.661320.6448
morexROO25.110219.634112.7313
morexROO222.458328.421227.0714
morexNOD88.837288.105451.8632
morexRAC24.644722.355924.7553
morexINF13.763785.241415.94091
morexINF29.594867.596.67723
morexCAR514.36549.9468813.9302
morexCAR151.504022.134491.30869
morexLEM50.581748.764236.4772
morexLOD41.267728.310960.2789
morexPAL30.747234.944755.2255
morexSEN25.113731.626426.3393



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os05g33880.1 +1 4e-42 151 85/143 (59%) protein|cysteine proteinase inhibitor precursor protein, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g25507.1.p +1 4e-59 196 118/155 (76%) 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 (1844 bp)

>BART1_0-u04235.001 1844 150831_barley_pseudomolecules
CCATCGTCCAACCACAAGCGTGTCGCAATCGACTAGAAGACGTTAACTTGCACTAGAAAT
ATTCCGCGCTAACCAAACACGAGATTCGCCGGACAAATCGGCTCCGATCCACCGCCCGAT
CCGGGCCGTGGACGTCTGGGATGCCTCGATCCGTCGCTGTCCCCCACACGCCAACCGAAC
CTGCCCCACTCGCTTTCCCCAACCCAAGAAGCAACGCGACGCAAGCAGGCAGGCAGACAG
CCACCACACGCCGACGCCAAACCCCGCGAACCAATCGGGAGCTCGGGAGGAGCGACGATG
GCCCGCCGCAGCGGCTGCTCCGTCGGCGCCGCGCTCCTCGCCCTCGCCGCCCTCCTCGCC
GCCTCGGCCGTCCCCGGGGCCGCCGGGTTCCACCTCGGCGGCGACGAGAGCGGCCTCGTG
CGGGGCATGCTCGCCGCCGTCCGCGAGCGGGCCGAGGCCGAGGACGCCGCGCGCTTCGCC
GTCGCTGAGCACAACAGGAAGCAGGGTTCTGCATTGGAGTTTACACGGGTTGTGGACGCG
AAAAGGCAAGTGGTTGCTGGGACCTTGCACAACCTGATGGTGGAGGTAGTGGATTCTGGA
AAGAAAAGTATGTACAAGGCAAAGGTATGGGTGAAGCCGTGGCAAAATTTCAAGGCGGTT
GTCGAGTTCCGTCATGCCGGGGACTTCCAGTCTGAGTCTTCCGTTGCTTCTGATGGTAGC
ACTGGGCAAGCTATCCTCAAGCTGTCCCTTCAAACCGACATGGCACCCAAGATGCACAGC
AACGATAACACTGGACTTTCTGTTGACTCGTCCTCTTCTCAGGCACACAAGGCGTGAAGG
TTGCTTCCATGGAGTATGGAACTGGAAGGCGTGAAGGTCGGAACATGAGGTTCTGAAATG
TAGCTGCCAGCAACTTGTGAACTTAAGTACTACTAGTAGTTTCCCCTGTGCAAAGTTTTT
ATCCACCGTTAGTCTGTTATCAAAGTCTTCATCCCCTGTTAGATAGTACTACTATATGCT
GTCACACGGACATTCTTTGAGCTTTTGACAGTTTGACGTCTGAACTCTGTATATTTGTTT
TAAAACGTGGTGACTCTGTATATTACATACTGTTCATGCCCAGGTAAGTACATTATGGCA
TTATTAGTGTTGCCTTCATTTGTTCATTCATGTCCCGAAGGACAAGGCATGTGTTCGGTG
AACCTACATATATACAAGTCACCACTCGCTTTGTATAAAAAATGTAAGACCTTTTTTGAC
AGTGACGTTGCCAAAAAAAAACGTCTTATATTCTAAAGGGTCGTCAAAACTCAATACAAA
ACCAAGATCTTTACATGATTGAATATGTTAATGCATTTTGTATTATGTGAATGAATTTAT
CTTCGCATTATCAATTATCTTAAACAAGGAGCAGAACTTGGCGCCATTTCATGTGCACTT
CCTCTCCTCTTCGAGAAGATTTTTCTAGATAAAAAGGCTTGAGACGTGTTCGACTTTTAA
TTAACAAAGCCATCAATCGATCAAGGATATAATGAGATTTTGAATTAACACAATGCCAAG
GATTACAATAGACTTTGAATTAACAAAACCATCAACCGTCCAGGAATTACAAGGTTCGTG
AGCAGCTTACAACACAACTTAGCAAGCACAAATGGTGTTGCCCACTACACTCCCCAAGAA
CTACAAGTAGAAGAGGAGCAGAGGATCATCCGATTGCCACGGGGAAGATCAAGACCATGG
CTGCTCCACTGGGCTGAGAAGAAGCAACTCCTTCCTTCTCTACTGCCGAAGAGGGCCCCA
ACCCTCACGTCCTGGCAGGACGCCACACCGTTGGTAAGAAGAGG



Protein Sequence (179 aa)

>BART1_0-u04235.001 179 150831_barley_pseudomolecules
MARRSGCSVGAALLALAALLAASAVPGAAGFHLGGDESGLVRGMLAAVRERAEAEDAARF
AVAEHNRKQGSALEFTRVVDAKRQVVAGTLHNLMVEVVDSGKKSMYKAKVWVKPWQNFKA
VVEFRHAGDFQSESSVASDGSTGQAILKLSLQTDMAPKMHSNDNTGLSVDSSSSQAHKA