Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u51812.008

ChromosomeExonStartStopDirection
chr7H1140679678140679395+
chr7H2140680207140680127+
chr7H3140680803140680682+
chr7H4140681781140681165+
chr7H5140683083140681885+
chr7H6140683501140683422+
chr7H7140683871140683827+
chr7H8140684053140683958+
chr7H9140684216140684143+
chr7H10140684701140684566+
chr7H11140685495140684971+


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
morexEMB0.458470.000005417780
morexETI0.00002036360.0000414190.000312741
morexLEA00.00000002726120.000000311975
morexEPI0.0004065410.000000001534870.000543531
morexROO00.00002864830.0000000123365
morexROO20.005407250.003326950.019319
morexNOD0.0002215110.009493330.0502546
morexRAC0.00005892960.00004480610.0000669013
morexINF10.00054965300
morexINF20.000001116750.00003797430.00000214559
morexCAR50.00001891690.000006299180.00000753965
morexCAR15000.000990259
morexLEM0.00002715910.000154460.0000667672
morexLOD0.00002221710.000004190930.0000226781
morexPAL0.0006231690.0002908410.0000191076
morexSEN0.0001860180.000001764880.000682431



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g19470.2 +2 0.0 827 561/866 (65%) protein|WW domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g43210.1.p +2 0.0 981 649/869 (75%) 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 (3259 bp)

>BART1_0-u51812.008 3259 150831_barley_pseudomolecules
GCTCAACCGAAGCGCCCACCCCGGACACCCGCCTACCGCCAGCTCCCTCCACTTCGCCTC
TCCTCCTGATTCGCACCGCTTCCCTTTTTGCCGTAAAACAAAACACCCCGACGTCACCCT
CCAAACCCTAACCCTAGAATCTAGAAGACGTCCATCTCCACCCCCGGCGCGCGCCCGACT
ACTCGGGGCAGCGGCGATGGGGAGGCGGAAGGAGCGCCGCCTGGCGGCCAAGGCGGCCTC
GGGCCGTAGGGTCAAGCTCGACCTCTTCCTCGATCCTTCCCCCGGGGAGGCATCTACTAA
AGAGGGAGTAGGGGAGGAAAACCGCGAGCAGCAAACTGGTGTTCCCACTTCACCATCTTC
GTCAGATAAGAAGGAAAATCCTCTAGCGTTGCTTGGGCAATATAGTGATGATGAAGAAGA
GGATGAAGTAGCAACAGATCAACCCAATGGTGAAACTAAGGGAAGTTCAACTGATGCAAG
TGCCAAGGTTTTTAACGATCATGGTGATGTAACTGGGGATAAAGGCGATGCAGATAGTGA
ACTGCCTGCTTCTGTTAGTGTTCAGCAGGAAGCATCTCAAGCCGATGATGTAAAAACTAT
CACAGAAAATGTTGCTGAGGAATTTACTGTTGCCCCTGAGCCAACTCTGGAAAATGAGTG
TGTGACAGTAATGGAAGCTGTCCCAGATTCATCTGGCATGCAAATCGTGGGTGACATTGG
TGGGAATTGGAAGGCTATAATGCATGAACAAAGTAATCAGTGTTACTACTGGAACACAGT
TACAGGAGAAACTTCTTGGGAGATTCCTGATGGATTAGCTTCGGGGGTTGCTGGTGATGG
AGTCACTTCTGCATCTGTGCCTACTCATATGGGCTACTCTGTAGAAGCTCAAGCACATGT
CCTTCCCCACAGCAATGTTGAAGCATATCCTAGTGATGTATCTGTTGGGAATGGCACAGC
AACCTATACTGCTATGGGAACTTATACTCATGATGCTTATGCTTACACTGGAGCCGTCGC
TAGTCATGAGTCAGTGGACATTGACCCCTTGCAGCTTGCAAAATATGGTGAGGATTTACT
GCAAAGATTGAAGCTGCTGGAAAGGCCACATGTTGCCATTGACAGTCTTGAGTTGATAAA
AAGAGAAATTGAGATACGAGTAGCAGACTGTAATGCACTCTCCTCGTATGGATCTTCTTT
ACTTCCATTGTGGTTGCATGCTGAGGTGCACCTTAAGCAACTAGAACTTTCAGTTTCCAA
GTTTGAAGCTAGCTACACTACCAGACATGGATATCTGGAGACGGTGGATGCAGGACACAA
AGCACCTAATGAAGCTAAAGTTATGGCACCCTCCGAGGGTGAGCATTTGAAAGTTGATGT
TAGCACTCTGGGAATTGGTACTGGCGATGAAAATATTAAGGTTGAGGAACCATGTACAAC
ATCATCTGCTCAGAACTCACAATGTGTGGCAGCAGCTATTTTAAGAGTTGAATCAGACAG
TGATGAAGATATGGACGTGGACATGGAGGTCGATGAAGAAGGTGTTGAAGAGCACGGCGG
ATTCACTTCTATGCCAAATAAGGAGCATCCTTCATCAGAGCAAGTACGATCACCAGCTTT
GTCATCATTGGAAGACTCTGCTCCTCCCCAACAGGATAATGACATTCCTCCTCCACCACC
ACCACCAGAAGAGGAATGGATTCCACCTCCACCACCGGAGAATGAACCAGCTCCTCCACC
TCCTCCTGAGCCTGAAGAGCCTGCTGTGTCATTTGTTCATGCTGATACACTTCCTCAGCC
ATACGGAGGTCAAGCAAACTTGGGTTATATGCTTCCAGGAATGGAGTACTATCCCGCTTC
TGGTACAGATGGCACAAATGCCAGCTACTATATGCAAGCGAGCGATTCTCATATTCTTCA
ATCGCAGCAGCATTCTTACTACGCACCGTTGTCTGCAAGTGGCGTATCTATTCCTGTTGA
GACCACATCGATCCCCCCAGTACCAGGTTCTTATTATAGCTATCCTTCTGTCACTATGGC
TGCCACTGAAGTAGCGGCTGAATCTTCTGGATACTATGGTTCATCAACCTCTGCCATTTC
TAGCGGTGAATTAGATAACAAAACAAGCTCAGCCTCCCTTGTTTCAAATAGTAATGTGAA
TCCTGTGGAGTCTGATAAAGTGATATCCAAGGAGCCTACAGTTGTTTCTTTGAGCCAATC
AGTAGGGGCAGCCTCAGCTTCAGCACCAACAGTACATGGTAGTTCTACTCTAGCTTCTAC
TAGTACCACTAATCAGACTAAAGTTCCTCGTACTAAGAAGCGACCTGTTGCTGTTGCATC
ATCACTGAGATCTAATAAGAAGGTCTCAAGTCTGGTGGATAAGGCAGAGCAATCTGTTTA
CATGGTAATTGGTAAGGCTTAAGACAAGTGGAAAGCTGCAAAAGAGGAGCTTTGTGATGA
AGAGGAAGAGGAGCCTGAAGATGCTTTGGAGTACCTAGAAAGGAAACGTCGGAAGGAAAT
AGATGGGTGGCGTAAGCAACAAATAGCTAGTGGAGAAGCTAAGGAAAATGCTAATTTTGT
TCCCCTTGGCGGTAACTGGCGTGACCGTGTAAAACGCAAAAGAGCTGAAGCAAAGAAGGA
AGCAAAGACTGAATCTGTTTGTGCAGCTGCCGAACAACACAAAGGAGAGCCTGATCTCTC
AGAGCTTTCCAAGGGTCTCCCTTCTGGGTGGCAGGCATACATAGACGAGTCTACGAAGCA
AGTGTACTATGGGAACAACCTCACTTCCGAGACTACTTGGGATCGGCCTAGCAAATAAAG
ATTGAACTAGTTGAAGATGGTCCAGTTTTGCTCTGTAGATATCCTCATACATCTATACGT
TGCCTGTCTGGTTATGAGGCTGTATTGTTTCTTTTATTTTCCACTGGGAGATCGTAGCAG
GAAGGATACTTCATTTTGGTATATAGAGGCATCCCTTGTAAGAGTGGCAACTTGAGATCG
AATTACTGAAGCAAAAAATACTAGTTAGTTGCTGACCAAGGAAAAATGTGCCTTGTTAAG
TGGTGGGAGTCTTTACCTCGATCTGATACCATTTGCTTTCAAAACAATGTCAATTATATT
CGATTTTAGGTTGTGCTAAATTCTAGACTTCTCCAATTATTTAACATTAGAAAGAAAGAT
GATTTTTAAGTTTTTTTTCACACTTATTTTTTTTTTAAACTTCAAAATGCCCTCGGACAT
CATTGGCTGGATTTTGTTT



Protein Sequence (741 aa)

>BART1_0-u51812.008 741 150831_barley_pseudomolecules
MGRRKERRLAAKAASGRRVKLDLFLDPSPGEASTKEGVGEENREQQTGVPTSPSSSDKKE
NPLALLGQYSDDEEEDEVATDQPNGETKGSSTDASAKVFNDHGDVTGDKGDADSELPASV
SVQQEASQADDVKTITENVAEEFTVAPEPTLENECVTVMEAVPDSSGMQIVGDIGGNWKA
IMHEQSNQCYYWNTVTGETSWEIPDGLASGVAGDGVTSASVPTHMGYSVEAQAHVLPHSN
VEAYPSDVSVGNGTATYTAMGTYTHDAYAYTGAVASHESVDIDPLQLAKYGEDLLQRLKL
LERPHVAIDSLELIKREIEIRVADCNALSSYGSSLLPLWLHAEVHLKQLELSVSKFEASY
TTRHGYLETVDAGHKAPNEAKVMAPSEGEHLKVDVSTLGIGTGDENIKVEEPCTTSSAQN
SQCVAAAILRVESDSDEDMDVDMEVDEEGVEEHGGFTSMPNKEHPSSEQVRSPALSSLED
SAPPQQDNDIPPPPPPPEEEWIPPPPPENEPAPPPPPEPEEPAVSFVHADTLPQPYGGQA
NLGYMLPGMEYYPASGTDGTNASYYMQASDSHILQSQQHSYYAPLSASGVSIPVETTSIP
PVPGSYYSYPSVTMAATEVAAESSGYYGSSTSAISSGELDNKTSSASLVSNSNVNPVESD
KVISKEPTVVSLSQSVGAASASAPTVHGSSTLASTSTTNQTKVPRTKKRPVAVASSLRSN
KKVSSLVDKAEQSVYMVIGKA