Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u54453.006

ChromosomeExonStartStopDirection
chr7H1514441144514440918-
chr7H2514442287514442135-
chr7H3514442474514442367-
chr7H4514442603514442556-
chr7H5514442889514442719-
chr7H6514443079514443015-
chr7H7514443422514443298-
chr7H8514443642514443512-
chr7H9514444642514444530-


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
morexEMB705.165875.1351064.78
morexETI99.569892.6087126.113
morexLEA222.016173.36964.9755
morexEPI98.2199187.347137.978
morexROO160.08168.003123.085
morexROO298.468260.876106.785
morexNOD404.62152.037136.616
morexRAC162.128131.20858.2419
morexINF1366.742353.122361.844
morexINF2308.318270.44296.159
morexCAR5581.698605.78603.719
morexCAR15245.812258.896257.125
morexLEM57.982177.221368.513
morexLOD135.633146.13796.3215
morexPAL129.33584.887448.303
morexSEN78.137627.441896.0969



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g09250.2 +3 0.0 521 257/292 (88%) protein|glyoxalase family protein, putative, expressed
TAIR PP10 AT1G11840 @ ARAPORT
AT1G11840.6 @ TAIR		 +3 4e-152 432 205/280 (73%) Symbols: GLX1 | glyoxalase I homolog | chr1:3995928-3997518 FORWARD LENGTH=322
BRACH PP3 Bradi3g14960.1.p +3 0.0 536 264/292 (90%) pacid=32813745 transcript=Bradi3g14960.1 locus=Bradi3g14960 ID=Bradi3g14960.1.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 (1141 bp)

>BART1_0-u54453.006 1141 150831_barley_pseudomolecules
GTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTTGGAAGCCTCTA
GACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTCCGGGGTGACAA
CAGGGATGGCTACCGGTAGCGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTA
AGCAGGACAAAAAGAGGATGCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCA
TTAAGTGTTACACAGAATGCTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAG
AGAAGTACACCAATGCGTTTCTTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGC
TGACTTACAATTATGGTGTTGACAAGTACGACATTGGAGCGGGCTTTGGACATTTTGCCA
TCGCAAATGAGGATATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTCCACTGTGATTG
CCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGGTCCGACGCCTG
AGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTATCATGTTCTACG
AGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTATAAGTACACCA
TTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTGGAGTTGACATACAACT
ATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTTGCTATTGGCACTGACG
ATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAGGTGGAAAGATTC
TAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACCTCTTTCCTTGACCCAG
ATGGCTGGAAAGTGGTTCTGGTGGACTACGCAGACTTCCTCAAGGAGCTGCACTGAAGAT
GAGCAGGCTCAGATGTTAGTGTCGTGAGGAGGAACCGTATGTAGCAATGGTCTGTGTGAT
GTAATAAAACAAACCTCATGTAGCAAATGGTCTGTGTGCGATGTAATAAAAAGGCAGCCT
CTTCCGCTCGACGAATAAAAATAAAAGCAACTACCGCATGCCCATGCCGTCATTNNNNNN
N



Protein Sequence (276 aa)

>BART1_0-u54453.006 276 150831_barley_pseudomolecules
MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK
YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDITREPGPVKGGSTVIAF
AQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMKLLRKKDVPQYKYTIA
MMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAEAVELVTKELGGKILR
QPGPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH