Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u51812.021

ChromosomeExonStartStopDirection
chr7H1140679678140679413+
chr7H2140680207140680127+
chr7H3140680803140680682+
chr7H4140681744140681165+
chr7H5140683083140681885+
chr7H6140684053140683422+
chr7H7140684216140684143+
chr7H8140684701140684566+
chr7H9140685390140684971+


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
morexEMB0.2256610.0000000004679380.0000000124616
morexETI000.000000000318694
morexLEA0.0000000003449180.00051930.0000000709279
morexEPI0.00003138110.0001087060.0317059
morexROO00.00000006358790.0000000189885
morexROO20.0000008187270.00000000221070.0000000288651
morexNOD0.03539730.00001278630.000000668691
morexRAC0.0000028913600.00000265804
morexINF10.129210.0000000005394180.017297
morexINF20.000001589040.003794860.00623828
morexCAR50.2668857.108410.497422
morexCAR150.0000001124370.00000007718490.0000109068
morexLEM0.00000003471170.00002031120.000000119862
morexLOD00.00001838250.000000022366
morexPAL0.000003046510.0000006738040
morexSEN00.000006729720



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g19470.2 +2 0.0 344 189/278 (68%) protein|WW domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g43210.1.p +1 0.0 400 314/429 (73%) pacid=32799652 transcript=Bradi1g43210.1 locus=Bradi1g43210 ID=Bradi1g43210.1.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 (3510 bp)

>BART1_0-u51812.021 3510 150831_barley_pseudomolecules
CCCCGGACACCCGCCTACCGCCAGCTCCCTCCACTTCGCCTCTCCTCCTGATTCGCACCG
CTTCCCTTTTTGCCGTAAAACAAAACACCCCGACGTCACCCTCCAAACCCTAACCCTAGA
ATCTAGAAGACGTCCATCTCCACCCCCGGCGCGCGCCCGACTACTCGGGGCAGCGGCGAT
GGGGAGGCGGAAGGAGCGCCGCCTGGCGGCCAAGGCGGCCTCGGGCCGTAGGGTCAAGCT
CGACCTCTTCCTCGATCCTTCCCCCGGGGAGGCATCTACTAAAGAGGGAGTAGGGGAGGA
AAACCGCGAGCAGCAAACTGGTGTTCCCACTTCACCATCTTCGTCAGATAAGAAGGAAAA
TCCTCTAGCGTTGCTTGGGCAATATAGTGATGATGAAGAAGAGGATGAAGTAGCAACAGA
TCAACCCAATGGTGAAACTAAGGGAAGTTCAACTGATGCAAGTGCCAAGGTTTTTAACGA
TCATGGTGATGTAACTGGGGATAAAGGCGATGCAGATAGTGAACTGCCTGCTTCTGTTAG
TGTTCAGCAGGAAGCATCTCAAGCCGATGATGTAAAAACTATCACAGAAAATGTTGCTGA
GGAATTTACTGTTGCCCCTGAGCCAACTCTGGAAAATGAGTGTGTGACAGTAATGGAAGC
TGTCCCAGATTCATCTGGCATGCAAATCGTGGGTGACATTGGTGGGAATTGGAAGGCTAT
AATGCATGAACAAAGTAATCAGTGTTACTACTGGAACACAGTTACAGGAGAAACTTCTTG
GGAGATTCCTGATGGATTAGCTTCGGGGGTTGCTGGTGATGGAGTCACTTCTGCATCTGT
GCCTACTCATATGGGCTACTCTGTAGAAGCTCAAGCACATGTCCTTCCCCACAGCAATGT
TGAAGCATATCCTAGTGATGTATCTGTTGGGAATGGCACAGCAACCTATACTGCTATGGG
AACTTATACTCATGATGCTTATGCTTACACTGGAGCCGTCGCTAGTCATGAGTCAGTGGA
CATTGACCCCTTGCAGCTTGCAAAATATGGCCACATGTTGCCATTGACAGTCTTGAGTTG
ATAAAAAGAGAAATTGAGATACGAGTAGCAGACTGTAATGCACTCTCCTCGTATGGATCT
TCTTTACTTCCATTGTGGTTGCATGCTGAGGTGCACCTTAAGCAACTAGAACTTTCAGTT
TCCAAGTTTGAAGCTAGCTACACTACCAGACATGGATATCTGGAGACGGTGGATGCAGGA
CACAAAGCACCTAATGAAGCTAAAGTTATGGCACCCTCCGAGGGTGAGCATTTGAAAGTT
GATGTTAGCACTCTGGGAATTGGTACTGGCGATGAAAATATTAAGGTTGAGGAACCATGT
ACAACATCATCTGCTCAGAACTCACAATGTGTGGCAGCAGCTATTTTAAGAGTTGAATCA
GACAGTGATGAAGATATGGACGTGGACATGGAGGTCGATGAAGAAGGTGTTGAAGAGCAC
GGCGGATTCACTTCTATGCCAAATAAGGAGCATCCTTCATCAGAGCAAGTACGATCACCA
GCTTTGTCATCATTGGAAGACTCTGCTCCTCCCCAACAGGATAATGACATTCCTCCTCCA
CCACCACCACCAGAAGAGGAATGGATTCCACCTCCACCACCGGAGAATGAACCAGCTCCT
CCACCTCCTCCTGAGCCTGAAGAGCCTGCTGTGTCATTTGTTCATGCTGATACACTTCCT
CAGCCATACGGAGGTCAAGCAAACTTGGGTTATATGCTTCCAGGAATGGAGTACTATCCC
GCTTCTGGTACAGATGGCACAAATGCCAGCTACTATATGCAAGCGAGCGATTCTCATATT
CTTCAATCGCAGCAGCATTCTTACTACGCACCGTTGTCTGCAAGTGGCGTATCTATTCCT
GTTGAGACCACATCGATCCCCCCAGTACCAGGTTCTTATTATAGCTATCCTTCTGTCACT
ATGGCTGCCACTGAAGTAGCGGCTGAATCTTCTGGATACTATGGTTCATCAACCTCTGCC
ATTTCTAGCGGTGAATTAGATAACAAAACAAGCTCAGCCTCCCTTGTTTCAAATAGTAAT
GTGAATCCTGTGGAGTCTGATAAAGTGATATCCAAGGAGCCTACAGTTGTTTCTTTGAGC
CAATCAGTAGGGGCAGCCTCAGCTTCAGCACCAACAGTACATGGTAGTTCTACTCTAGCT
TCTACTAGTACCACTAATCAGACTAAAGTTCCTCGTACTAAGAAGCGACCTGTTGCTGTT
GCATCATCACTGAGATCTAATAAGAAGGTCTCAAGTCTGGTGGATAAGGTATCTCCCTGA
CCTCCCAAAGCTGCTGTTAAAATAGTGACCATCTCTGCTCTCTCCTACCCTACCATCAAC
TGCTCCCAAGTGTGGTGCTTGACATCAATGAAGAAATTTAACTCACTGCATGATATGCAT
TATTGCTAATGGTGTATACTTAGTCGTTGAGACATACTCTTGGTTATGTTATTAGCAAGA
GAGCACACTGTCCTCGGCCAGTTTATTTCGTGGTGCACAACATTGGTCCTCCAGAAAAAA
AACTCATGCAAGTGGGAGTATGGCCGTGTTTCCTGACTATTTCGTCTCATGTTTATCATT
TCTTATTTTAAAGGCAGAGCAATCTGTTTACATGGTAATTGGTAAGGCTTAAGACAAGGT
GAGTGTTGATGTATAATGATTGTTTCCTTATTAATCTACCTTTACTAAAGCGACCTTTTA
TTTTATTTTATTTCACTATTACAGTGGAAAGCTGCAAAAGAGGAGCTTTGTGATGAAGAG
GAAGAGGAGCCTGAAGATGCTTTGGAGTACCTAGAAAGGAAACGTCGGAAGGAAATAGAT
GGGTGGCGTAAGCAACAAATAGCTAGTGGAGAAGCTAAGGAAAATGCTAATTTTGTTCCC
CTTGGCGGTAACTGGCGTGACCGTGTAAAACGCAAAAGAGCTGAAGCAAAGAAGGAAGCA
AAGACTGAATCTGTTTGTGCAGCTGCCGAACAACACAAAGGAGAGCCTGATCTCTCAGAG
CTTTCCAAGGGTCTCCCTTCTGGGTGGCAGGCATACATAGACGAGTCTACGAAGCAAGTG
TACTATGGGAACAACCTCACTTCCGAGACTACTTGGGATCGGCCTAGCAAATAAAGATTG
AACTAGTTGAAGATGGTCCAGTTTTGCTCTGTAGATATCCTCATACATCTATACGTTGCC
TGTCTGGTTATGAGGCTGTATTGTTTCTTTTATTTTCCACTGGGAGATCGTAGCAGGAAG
GATACTTCATTTTGGTATATAGAGGCATCCCTTGTAAGAGTGGCAACTTGAGATCGAATT
ACTGAAGCAAAAAATACTAGTTAGTTGCTGACCAAGGAAAAATGTGCCTTGTTAAGTGGT
GGGAGTCTTTACCTCGATCTGATACCATTTGCTTTCAAAACAATGTCAATTATATTCGAT
TTTAGGTTGTGCTAAATTCTAGACTTCTCC



Protein Sequence (359 aa)

>BART1_0-u51812.021 359 150831_barley_pseudomolecules
PGHPPTASSLHFASPPDSHRFPFCRKTKHPDVTLQTLTLESRRRPSPPPARARLLGAAAM
GRRKERRLAAKAASGRRVKLDLFLDPSPGEASTKEGVGEENREQQTGVPTSPSSSDKKEN
PLALLGQYSDDEEEDEVATDQPNGETKGSSTDASAKVFNDHGDVTGDKGDADSELPASVS
VQQEASQADDVKTITENVAEEFTVAPEPTLENECVTVMEAVPDSSGMQIVGDIGGNWKAI
MHEQSNQCYYWNTVTGETSWEIPDGLASGVAGDGVTSASVPTHMGYSVEAQAHVLPHSNV
EAYPSDVSVGNGTATYTAMGTYTHDAYAYTGAVASHESVDIDPLQLAKYGHMLPLTVLS