Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u51812.029

ChromosomeExonStartStopDirection
chr7H1140679678140679416+
chr7H2140680207140680127+
chr7H3140680803140680682+
chr7H4140681781140681165+
chr7H5140683178140681885+
chr7H6140683501140683422+
chr7H7140683871140683827+
chr7H8140684053140683958+
chr7H9140684216140684143+
chr7H10140684701140684566+
chr7H11140685407140684971+


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
morexEMB00.8960080.42852
morexETI1.964600
morexLEA1.482520.7915871.3226
morexEPI0.000000001317143.1730
morexROO00.959261.70485
morexROO200.00008598330.000247433
morexNOD00.000000006437150.0000601017
morexRAC00.0000000002015770.8184
morexINF10.940272.748422.73933
morexINF20.06913770.06753040.642976
morexCAR50.2657650.0002077371.88435
morexCAR152.081963.749750.0449943
morexLEM0.01224990.1982740
morexLOD1.358960.00000009251980.000000225289
morexPAL0.0000005399320.0002872590.150658
morexSEN0.161530.9678650.00799016



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g19470.2 +2 0.0 641 439/691 (64%) protein|WW domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g43210.1.p +2 0.0 773 511/697 (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 (3245 bp)

>BART1_0-u51812.029 3245 150831_barley_pseudomolecules
CGGACACCCGCCTACCGCCAGCTCCCTCCACTTCGCCTCTCCTCCTGATTCGCACCGCTT
CCCTTTTTGCCGTAAAACAAAACACCCCGACGTCACCCTCCAAACCCTAACCCTAGAATC
TAGAAGACGTCCATCTCCACCCCCGGCGCGCGCCCGACTACTCGGGGCAGCGGCGATGGG
GAGGCGGAAGGAGCGCCGCCTGGCGGCCAAGGCGGCCTCGGGCCGTAGGGTCAAGCTCGA
CCTCTTCCTCGATCCTTCCCCCGGGGAGGCATCTACTAAAGAGGGAGTAGGGGAGGAAAA
CCGCGAGCAGCAAACTGGTGTTCCCACTTCACCATCTTCGTCAGATAAGAAGGAAAATCC
TCTAGCGTTGCTTGGGCAATATAGTGATGATGAAGAAGAGGATGAAGTAGCAACAGATCA
ACCCAATGGTGAAACTAAGGGAAGTTCAACTGATGCAAGTGCCAAGGTTTTTAACGATCA
TGGTGATGTAACTGGGGATAAAGGCGATGCAGATAGTGAACTGCCTGCTTCTGTTAGTGT
TCAGCAGGAAGCATCTCAAGCCGATGATGTAAAAACTATCACAGAAAATGTTGCTGAGGA
ATTTACTGTTGCCCCTGAGCCAACTCTGGAAAATGAGTGTGTGACAGTAATGGAAGCTGT
CCCAGATTCATCTGGCATGCAAATCGTGGGTGACATTGGTGGGAATTGGAAGGCTATAAT
GCATGAACAAAGTAATCAGTGTTACTACTGGAACACAGTTACAGGAGAAACTTCTTGGGA
GATTCCTGATGGATTAGCTTCGGGGGTTGCTGGTGATGGAGTCACTTCTGCATCTGTGCC
TACTCATATGGGCTACTCTGTAGAAGCTCAAGCACATGTCCTTCCCCACAGCAATGTTGA
AGCATATCCTAGTGATGTATCTGTTGGGAATGGCACAGCAACCTATACTGCTATGGGAAC
TTATACTCATGATGCTTATGCTTACACTGGAGCCGTCGCTAGTCATGAGTCAGTGGACAT
TGACCCCTTGCAGCTTGCAAAATATGGTGAGGATTTACTGCAAAGATTGAAGCTGCTGGA
AAGGCCACATGTTGCCATTGACAGTCTTGAGTTGATAAAAAGAGAAATTGAGATACGAGT
AGCAGACTGTAATGCACTCTCCTCGTATGGATCTTCTTTACTTCCATTGTGGTTGCATGC
TGAGGTGCACCTTAAGCAACTAGAACTTTCAGTTTCCAAGTTTGAAGCTAGCTACACTAC
CAGACATGGATATCTGGAGACGGTGGATGCAGGACACAAAGCACCTAATGAAGCTAAAGT
TATGGCACCCTCCGAGGGTGAGCATTTGAAAGTTGATGTTAGCACTCTGGGAATTGGTAC
TGGCGATGAAAATATTAAGGTTGAGGAACCATGTACAACATCATCTGCTCAGAACTCACA
ATGTGTGGCAGCAGCTATTTTAAGAGTTGAATCAGACAGTGATGAAGATATGGACGTGGA
CATGGAGGTCGATGAAGAAGGTGTTGAAGAGCACGGCGGATTCACTTCTATGCCAAATAA
GGAGCATCCTTCATCAGAGCAAGTACGATCACCAGCTTTGTCATCATTGGAAGACTCTGC
TCCTCCCCAACAGGATAATGACATTCCTCCTCCACCACCACCACCAGAAGAGGAATGGAT
TCCACCTCCACCACCGGAGAATGAACCAGCTCCTCCACCTCCTCCTGAGCCTGAAGAGCC
TGCTGTGTCATTTGTTCATGCTGATACACTTCCTCAGCCATACGGAGGTCAAGCAAACTT
GGGTTATATGCTTCCAGGAATGGAGTACTATCCCGCTTCTGGTACAGATGGCACAAATGC
CAGCTACTATATGCAAGCGAGCGATTCTCATATTCTTCAATCGCAGCAGCATTCTTACTA
CGCACCGTTGTCTGCAAGTGGCGTATCTATTCCTGTTGAGACCACATCGATCCCCCCAGT
ACCAGGTTCTTATTATAGCTATCCTTCTGTCACTATGGCTGCCACTGAAGTAGCGGCTGA
ATCTTCTGGATACTATGGTTCATCAACCTCTGCCATTTCTAGCGGTGAATTAGATAACAA
AACAAGCTCAGCCTCCCTTGTTTCAAATAGTAATGTGAATCCTGTGGAGTCTGATAAAGT
GATATCCAAGGAGCCTACAGTTGTTTCTTTGAGCCAATCAGTAGGGGCAGCCTCAGCTTC
AGCACCAACAGTACATGGTAGTTCTACTCTAGCTTCTACTAGTACCACTAATCAGACTAA
AGGTAATTTATTATTCTTTGCAAGGATACTTAATGTTACTAGCTCGTACATGGTAGTTCT
ACTCTAGCTTCTACTAGTACCACTAATCAGACTAAAGTTCCTCGTACTAAGAAGCGACCT
GTTGCTGTTGCATCATCACTGAGATCTAATAAGAAGGTCTCAAGTCTGGTGGATAAGGCA
GAGCAATCTGTTTACATGGTAATTGGTAAGGCTTAAGACAAGTGGAAAGCTGCAAAAGAG
GAGCTTTGTGATGAAGAGGAAGAGGAGCCTGAAGATGCTTTGGAGTACCTAGAAAGGAAA
CGTCGGAAGGAAATAGATGGGTGGCGTAAGCAACAAATAGCTAGTGGAGAAGCTAAGGAA
AATGCTAATTTTGTTCCCCTTGGCGGTAACTGGCGTGACCGTGTAAAACGCAAAAGAGCT
GAAGCAAAGAAGGAAGCAAAGACTGAATCTGTTTGTGCAGCTGCCGAACAACACAAAGGA
GAGCCTGATCTCTCAGAGCTTTCCAAGGGTCTCCCTTCTGGGTGGCAGGCATACATAGAC
GAGTCTACGAAGCAAGTGTACTATGGGAACAACCTCACTTCCGAGACTACTTGGGATCGG
CCTAGCAAATAAAGATTGAACTAGTTGAAGATGGTCCAGTTTTGCTCTGTAGATATCCTC
ATACATCTATACGTTGCCTGTCTGGTTATGAGGCTGTATTGTTTCTTTTATTTTCCACTG
GGAGATCGTAGCAGGAAGGATACTTCATTTTGGTATATAGAGGCATCCCTTGTAAGAGTG
GCAACTTGAGATCGAATTACTGAAGCAAAAAATACTAGTTAGTTGCTGACCAAGGAAAAA
TGTGCCTTGTTAAGTGGTGGGAGTCTTTACCTCGATCTGATACCATTTGCTTTCAAAACA
ATGTCAATTATATTCGATTTTAGGTTGTGCTAAATTCTAGACTTCTCCAATTATTTAACA
TTAGA



Protein Sequence (723 aa)

>BART1_0-u51812.029 723 150831_barley_pseudomolecules
MGRRKERRLAAKAASGRRVKLDLFLDPSPGEASTKEGVGEENREQQTGVPTSPSSSDKKE
NPLALLGQYSDDEEEDEVATDQPNGETKGSSTDASAKVFNDHGDVTGDKGDADSELPASV
SVQQEASQADDVKTITENVAEEFTVAPEPTLENECVTVMEAVPDSSGMQIVGDIGGNWKA
IMHEQSNQCYYWNTVTGETSWEIPDGLASGVAGDGVTSASVPTHMGYSVEAQAHVLPHSN
VEAYPSDVSVGNGTATYTAMGTYTHDAYAYTGAVASHESVDIDPLQLAKYGEDLLQRLKL
LERPHVAIDSLELIKREIEIRVADCNALSSYGSSLLPLWLHAEVHLKQLELSVSKFEASY
TTRHGYLETVDAGHKAPNEAKVMAPSEGEHLKVDVSTLGIGTGDENIKVEEPCTTSSAQN
SQCVAAAILRVESDSDEDMDVDMEVDEEGVEEHGGFTSMPNKEHPSSEQVRSPALSSLED
SAPPQQDNDIPPPPPPPEEEWIPPPPPENEPAPPPPPEPEEPAVSFVHADTLPQPYGGQA
NLGYMLPGMEYYPASGTDGTNASYYMQASDSHILQSQQHSYYAPLSASGVSIPVETTSIP
PVPGSYYSYPSVTMAATEVAAESSGYYGSSTSAISSGELDNKTSSASLVSNSNVNPVESD
KVISKEPTVVSLSQSVGAASASAPTVHGSSTLASTSTTNQTKGNLLFFARILNVTSSYMV
VLL