Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u54453.010

ChromosomeExonStartStopDirection
chr7H1514441144514440918-
chr7H2514442287514442135-
chr7H3514442474514442367-
chr7H4514442603514442556-
chr7H5514442934514442719-
chr7H6514443079514443015-
chr7H7514443422514443298-
chr7H8514443642514443512-
chr7H9514444771514444414-


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
morexEMB4.751229.458996.0393
morexETI0.7053970.7072420.660624
morexLEA1.961330.3354010
morexEPI00.231240.235687
morexROO0.9535050.9131650.163987
morexROO20.3267671.991880.230755
morexNOD0.86748800.0978713
morexRAC2.026121.684730.79781
morexINF10.16043700
morexINF20.1440730.342670.450744
morexCAR50.8115510.6808070.916674
morexCAR15000
morexLEM0.89866100.209622
morexLOD1.760940.7188111.84505
morexPAL0.335050.2984410.257327
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g09250.2 +2 0.0 555 269/292 (92%) protein|glyoxalase family protein, putative, expressed
TAIR PP10 AT1G11840 @ ARAPORT
AT1G11840.4 @ TAIR		 +2 2e-155 442 209/281 (74%) Symbols: ATGLX1, GLX1 | glyoxalase I homolog | chr1:3996045-3997518 FORWARD LENGTH=283
BRACH PP3 Bradi3g14960.1.p +2 0.0 570 275/292 (94%) 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 (1431 bp)

>BART1_0-u54453.010 1431 150831_barley_pseudomolecules
CTTGAGTGCCGGCATGGCCCATTTGTAACCTTGCTGGGCCAGGCCCATCCATGCCGACAC
GCGCCCACAGCCCATCTGGCCAGCTTTAGTGGGAGGGATGCGCTTTTACAGCCTGTGAGG
AGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTTGG
AAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTCCG
GGGTGAGCATCCCCAAATCCATCTCCTTCGTCCTCTCTTCCGCTTGCTTCCTTTACGCGC
CGGTGCGTAGTTTTCCGATTCGCCGTTCCTTTAATGTCTGCTTGTAGATTTCTTACAGGT
GACAACAGGGATGGCTACCGGTAGCGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATG
GCCTAAGCAGGACAAAAAGAGGATGCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAA
AACCATTAAGTGTTACACAGAATGCTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCC
AGAAGAGAAGTACACCAATGCGTTTCTTGGGTTTGGACCTGAGGATACTAATTTTGCACT
TGAGCTGACTTACAATTATGGTGTTGACAAGTACGACATTGGAGCGGGCTTTGGACATTT
TGCCATCGCAAATGAGGATGTGTACAAGCTGTCTGAGACAATTAAATCATCTGATTGTTG
TAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTCCACTGTGATTGCCTTTGCACA
AGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGGTCCGACGCCTGAGCCTCTCTG
TCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTATCATGTTCTACGAGAAGGCCCT
TGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTATAAGTACACCATTGCCATGAT
GGGCTATGCTGAGGAGGACAAGACCACTGTTCTGGAGTTGACATACAACTATGGTGTCAC
GGAATATAACAAGGGCAATGCATATGCTCAGGTTGCTATTGGCACTGACGATGTGTACAA
GAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAGGTGGAAAGATTCTAAGGCAGCC
AGGGCCACTACCGGGGCTGAACACCAAAATCACCTCTTTCCTTGACCCAGATGGCTGGAA
AGTGGTTCTGGTGGACTACGCAGACTTCCTCAAGGAGCTGCACTGAAGATGAGCAGGCTC
AGATGTTAGTGTCGTGAGGAGGAACCGTATGTAGCAATGGTCTGTGTGATGTAATAAAAC
AAACCTCATGTAGCAAATGGTCTGTGTGCGATGTAATAAAAAGGCAGCCTCTTCCGCTCG
ACGAATAAAAATAAAAGCAACTACCGCATGCCCATGCCGTCATTNNNNNNN



Protein Sequence (291 aa)

>BART1_0-u54453.010 291 150831_barley_pseudomolecules
MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK
YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT
REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMK
LLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAE
AVELVTKELGGKILRQPGPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH