Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u51812.014

ChromosomeExonStartStopDirection
chr7H1140679678140679401+
chr7H2140680207140680127+
chr7H3140680417140680340+
chr7H4140680803140680682+
chr7H5140681781140681165+
chr7H6140682786140681885+
chr7H7140683083140682884+
chr7H8140684053140683422+
chr7H9140684216140684143+
chr7H10140684701140684566+
chr7H11140685431140684971+


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
morexEMB00.1770020
morexETI000
morexLEA000
morexEPI00.6773910
morexROO00.1269050
morexROO2000.188652
morexNOD001.36427
morexRAC0.94791300
morexINF1000
morexINF21.3830500.474395
morexCAR5000.000000000395455
morexCAR15000
morexLEM000
morexLOD000
morexPAL000.225479
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g19470.2 +2 0.0 582 377/619 (61%) protein|WW domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g43210.1.p +2 0.0 717 436/623 (70%) 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 (3581 bp)

>BART1_0-u51812.014 3581 150831_barley_pseudomolecules
CCGAAGCGCCCACCCCGGACACCCGCCTACCGCCAGCTCCCTCCACTTCGCCTCTCCTCC
TGATTCGCACCGCTTCCCTTTTTGCCGTAAAACAAAACACCCCGACGTCACCCTCCAAAC
CCTAACCCTAGAATCTAGAAGACGTCCATCTCCACCCCCGGCGCGCGCCCGACTACTCGG
GGCAGCGGCGATGGGGAGGCGGAAGGAGCGCCGCCTGGCGGCCAAGGCGGCCTCGGGCCG
TAGGGTCAAGCTCGACCTCTTCCTCGATCCTTCCCCCGGGGAGGCATCTACTAAAGAGGG
AGTAGGGGAGGAAAACCGCGAGCAGCAAACTGGTGTTCCCACTTCACCATCTTCGTCAGG
GTTCCCGGCCTGCAAGGAACACTGAGTAAATTCTTCAGATCAGGCTGCCACTGTCAAAAC
TGGGTGTGTTCCTACCGATAAGAAGGAAAATCCTCTAGCGTTGCTTGGGCAATATAGTGA
TGATGAAGAAGAGGATGAAGTAGCAACAGATCAACCCAATGGTGAAACTAAGGGAAGTTC
AACTGATGCAAGTGCCAAGGTTTTTAACGATCATGGTGATGTAACTGGGGATAAAGGCGA
TGCAGATAGTGAACTGCCTGCTTCTGTTAGTGTTCAGCAGGAAGCATCTCAAGCCGATGA
TGTAAAAACTATCACAGAAAATGTTGCTGAGGAATTTACTGTTGCCCCTGAGCCAACTCT
GGAAAATGAGTGTGTGACAGTAATGGAAGCTGTCCCAGATTCATCTGGCATGCAAATCGT
GGGTGACATTGGTGGGAATTGGAAGGCTATAATGCATGAACAAAGTAATCAGTGTTACTA
CTGGAACACAGTTACAGGAGAAACTTCTTGGGAGATTCCTGATGGATTAGCTTCGGGGGT
TGCTGGTGATGGAGTCACTTCTGCATCTGTGCCTACTCATATGGGCTACTCTGTAGAAGC
TCAAGCACATGTCCTTCCCCACAGCAATGTTGAAGCATATCCTAGTGATGTATCTGTTGG
GAATGGCACAGCAACCTATACTGCTATGGGAACTTATACTCATGATGCTTATGCTTACAC
TGGAGCCGTCGCTAGTCATGAGTCAGTGGACATTGACCCCTTGCAGCTTGCAAAATATGG
TGAGGATTTACTGCAAAGATTGAAGCTGCTGGAAAGGCCACATGTTGCCATTGACAGTCT
TGAGTTGATAAAAAGAGAAATTGAGATACGAGTAGCAGACTGTAATGCACTCTCCTCGTA
TGGATCTTCTTTACTTCCATTGTGGTTGCATGCTGAGGTGCACCTTAAGCAACTAGAACT
TTCAGTTTCCAAGTTTGAAGCTAGCTACACTACCAGACATGGATATCTGGAGACGGTGGA
TGCAGGACACAAAGCACCTAATGAAGCTAAAGTTATGGCACCCTCCGAGGGTGAGCATTT
GAAAGTTGATGTTAGCACTCTGGGAATTGGTACTGGCGATGAAAATATTAAGGTTGAGGA
ACCATGTACAACATCATCTGCTCAGAACTCACAATGTGTGGCAGCAGCTATTTTAAGAGT
TGAATCAGACAGTGATGAAGATATGGACGTGGACATGGAGGTCGATGAAGAAGGTGTTGA
AGAGCACGGCGGATTCACTTCTATGCCAAATAAGGAGCATCCTTCATCAGAGCAAGTACG
ATCACCAGCTTTGTCATCATTGGAAGACTCTGCTCCTCCCCAACAGGATAATGACATTCC
TCCTCCACCACCACCACCAGAAGAGGAATGGATTCCACCTCCACCACCGGAGAATGAACC
AGCTCCTCCACCTCCTCCTGAGCCTGAAGAGCCTGCTGTGTCATTTGTTCATGCTGATAC
ACTTCCTCAGCCATACGGAGGTCAAGCAAACTTGGGTTATATGCTTCCAGGAATGGAGTA
CTATCCCGCTTCTGGTACAGATGGCACAAATGCCAGCTACTATATGCAAGCGAGCGATTC
TCATATTCTTCAATCGCAGCAGCATTCTTACTACGCACCGTTGTCTGCAAGTGGCGTATC
TATTCCTGTTGAGACCACATCGATCCCCCCAGTACCAGCGGTGAATTAGATAACAAAACA
AGCTCAGCCTCCCTTGTTTCAAATAGTAATGTGAATCCTGTGGAGTCTGATAAAGTGATA
TCCAAGGAGCCTACAGTTGTTTCTTTGAGCCAATCAGTAGGGGCAGCCTCAGCTTCAGCA
CCAACAGTACATGGTAGTTCTACTCTAGCTTCTACTAGTACCACTAATCAGACTAAAGTT
CCTCGTACTAAGAAGCGACCTGTTGCTGTTGCATCATCACTGAGATCTAATAAGAAGGTC
TCAAGTCTGGTGGATAAGGTATCTCCCTGACCTCCCAAAGCTGCTGTTAAAATAGTGACC
ATCTCTGCTCTCTCCTACCCTACCATCAACTGCTCCCAAGTGTGGTGCTTGACATCAATG
AAGAAATTTAACTCACTGCATGATATGCATTATTGCTAATGGTGTATACTTAGTCGTTGA
GACATACTCTTGGTTATGTTATTAGCAAGAGAGCACACTGTCCTCGGCCAGTTTATTTCG
TGGTGCACAACATTGGTCCTCCAGAAAAAAAACTCATGCAAGTGGGAGTATGGCCGTGTT
TCCTGACTATTTCGTCTCATGTTTATCATTTCTTATTTTAAAGGCAGAGCAATCTGTTTA
CATGGTAATTGGTAAGGCTTAAGACAAGGTGAGTGTTGATGTATAATGATTGTTTCCTTA
TTAATCTACCTTTACTAAAGCGACCTTTTATTTTATTTTATTTCACTATTACAGTGGAAA
GCTGCAAAAGAGGAGCTTTGTGATGAAGAGGAAGAGGAGCCTGAAGATGCTTTGGAGTAC
CTAGAAAGGAAACGTCGGAAGGAAATAGATGGGTGGCGTAAGCAACAAATAGCTAGTGGA
GAAGCTAAGGAAAATGCTAATTTTGTTCCCCTTGGCGGTAACTGGCGTGACCGTGTAAAA
CGCAAAAGAGCTGAAGCAAAGAAGGAAGCAAAGACTGAATCTGTTTGTGCAGCTGCCGAA
CAACACAAAGGAGAGCCTGATCTCTCAGAGCTTTCCAAGGGTCTCCCTTCTGGGTGGCAG
GCATACATAGACGAGTCTACGAAGCAAGTGTACTATGGGAACAACCTCACTTCCGAGACT
ACTTGGGATCGGCCTAGCAAATAAAGATTGAACTAGTTGAAGATGGTCCAGTTTTGCTCT
GTAGATATCCTCATACATCTATACGTTGCCTGTCTGGTTATGAGGCTGTATTGTTTCTTT
TATTTTCCACTGGGAGATCGTAGCAGGAAGGATACTTCATTTTGGTATATAGAGGCATCC
CTTGTAAGAGTGGCAACTTGAGATCGAATTACTGAAGCAAAAAATACTAGTTAGTTGCTG
ACCAAGGAAAAATGTGCCTTGTTAAGTGGTGGGAGTCTTTACCTCGATCTGATACCATTT
GCTTTCAAAACAATGTCAATTATATTCGATTTTAGGTTGTGCTAAATTCTAGACTTCTCC
AATTATTTAACATTAGAAAGAAAGATGATTTTTAAGTTTTT



Protein Sequence (448 aa)

>BART1_0-u51812.014 448 150831_barley_pseudomolecules
MEAVPDSSGMQIVGDIGGNWKAIMHEQSNQCYYWNTVTGETSWEIPDGLASGVAGDGVTS
ASVPTHMGYSVEAQAHVLPHSNVEAYPSDVSVGNGTATYTAMGTYTHDAYAYTGAVASHE
SVDIDPLQLAKYGEDLLQRLKLLERPHVAIDSLELIKREIEIRVADCNALSSYGSSLLPL
WLHAEVHLKQLELSVSKFEASYTTRHGYLETVDAGHKAPNEAKVMAPSEGEHLKVDVSTL
GIGTGDENIKVEEPCTTSSAQNSQCVAAAILRVESDSDEDMDVDMEVDEEGVEEHGGFTS
MPNKEHPSSEQVRSPALSSLEDSAPPQQDNDIPPPPPPPEEEWIPPPPPENEPAPPPPPE
PEEPAVSFVHADTLPQPYGGQANLGYMLPGMEYYPASGTDGTNASYYMQASDSHILQSQQ
HSYYAPLSASGVSIPVETTSIPPVPAVN