Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u51812.013

ChromosomeExonStartStopDirection
chr7H1140679678140679396+
chr7H2140680417140680127+
chr7H3140680803140680682+
chr7H4140681781140681165+
chr7H5140683083140681885+
chr7H6140683501140683422+
chr7H7140683871140683827+
chr7H8140684053140683958+
chr7H9140684216140684143+
chr7H10140684701140684566+
chr7H11140685413140684971+


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
morexEMB000
morexETI0.001643770.0028470.00618112
morexLEA000
morexEPI0.014926100.0125985
morexROO00.000000001746160.0000000293961
morexROO20.0001404570.001167020.00937781
morexNOD00.04743390.0152037
morexRAC0.002081250.001689330.00983057
morexINF10.00000000027204700
morexINF20.00002188510.0000001246080.0000000134986
morexCAR50.0000005988120.000008084620.0000286165
morexCAR15000
morexLEM0.0009353290.006378590.00580133
morexLOD0.0002542460.02181840.00348263
morexPAL0.0363820.0430990.00124622
morexSEN0.000002530480.001137740.0000431256



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os06g19470.2 +1 0.0 775 536/841 (64%) protein|WW domain containing protein, expressed
TAIR PP10None-----
BRACH PP3 Bradi1g43210.1.p +1 0.0 911 614/840 (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 (3386 bp)

>BART1_0-u51812.013 3386 150831_barley_pseudomolecules
CTCAACCGAAGCGCCCACCCCGGACACCCGCCTACCGCCAGCTCCCTCCACTTCGCCTCT
CCTCCTGATTCGCACCGCTTCCCTTTTTGCCGTAAAACAAAACACCCCGACGTCACCCTC
CAAACCCTAACCCTAGAATCTAGAAGACGTCCATCTCCACCCCCGGCGCGCGCCCGACTA
CTCGGGGCAGCGGCGATGGGGAGGCGGAAGGAGCGCCGCCTGGCGGCCAAGGCGGCCTCG
GGCCGTAGGGTCAAGCTCGACCTCTTCCTCGATCCTTCCCCCGGGGAGGCATCTACTAAA
GAGGGAGTAGGGGAGGAAAACCGCGAGCAGCAAACTGGTGTTCCCACTTCACCATCTTCG
TCAGGTGGGTTCAATCAATTTCCTTCCAAGGGATATGTAAAGACGGCACATGCCTATGGA
ATGTAAATTTGGTGGAAATTTGGAATTTTGTTCAAGCATGTGTATGCTCCAAATTTCTGG
TTTGAGGCACATGTAGGGTTCCCGGCCTGCAAGGAACACTGAGTAAATTCTTCAGATCAG
GCTGCCACTGTCAAAACTGGGTGTGTTCCTACCGATAAGAAGGAAAATCCTCTAGCGTTG
CTTGGGCAATATAGTGATGATGAAGAAGAGGATGAAGTAGCAACAGATCAACCCAATGGT
GAAACTAAGGGAAGTTCAACTGATGCAAGTGCCAAGGTTTTTAACGATCATGGTGATGTA
ACTGGGGATAAAGGCGATGCAGATAGTGAACTGCCTGCTTCTGTTAGTGTTCAGCAGGAA
GCATCTCAAGCCGATGATGTAAAAACTATCACAGAAAATGTTGCTGAGGAATTTACTGTT
GCCCCTGAGCCAACTCTGGAAAATGAGTGTGTGACAGTAATGGAAGCTGTCCCAGATTCA
TCTGGCATGCAAATCGTGGGTGACATTGGTGGGAATTGGAAGGCTATAATGCATGAACAA
AGTAATCAGTGTTACTACTGGAACACAGTTACAGGAGAAACTTCTTGGGAGATTCCTGAT
GGATTAGCTTCGGGGGTTGCTGGTGATGGAGTCACTTCTGCATCTGTGCCTACTCATATG
GGCTACTCTGTAGAAGCTCAAGCACATGTCCTTCCCCACAGCAATGTTGAAGCATATCCT
AGTGATGTATCTGTTGGGAATGGCACAGCAACCTATACTGCTATGGGAACTTATACTCAT
GATGCTTATGCTTACACTGGAGCCGTCGCTAGTCATGAGTCAGTGGACATTGACCCCTTG
CAGCTTGCAAAATATGGTGAGGATTTACTGCAAAGATTGAAGCTGCTGGAAAGGCCACAT
GTTGCCATTGACAGTCTTGAGTTGATAAAAAGAGAAATTGAGATACGAGTAGCAGACTGT
AATGCACTCTCCTCGTATGGATCTTCTTTACTTCCATTGTGGTTGCATGCTGAGGTGCAC
CTTAAGCAACTAGAACTTTCAGTTTCCAAGTTTGAAGCTAGCTACACTACCAGACATGGA
TATCTGGAGACGGTGGATGCAGGACACAAAGCACCTAATGAAGCTAAAGTTATGGCACCC
TCCGAGGGTGAGCATTTGAAAGTTGATGTTAGCACTCTGGGAATTGGTACTGGCGATGAA
AATATTAAGGTTGAGGAACCATGTACAACATCATCTGCTCAGAACTCACAATGTGTGGCA
GCAGCTATTTTAAGAGTTGAATCAGACAGTGATGAAGATATGGACGTGGACATGGAGGTC
GATGAAGAAGGTGTTGAAGAGCACGGCGGATTCACTTCTATGCCAAATAAGGAGCATCCT
TCATCAGAGCAAGTACGATCACCAGCTTTGTCATCATTGGAAGACTCTGCTCCTCCCCAA
CAGGATAATGACATTCCTCCTCCACCACCACCACCAGAAGAGGAATGGATTCCACCTCCA
CCACCGGAGAATGAACCAGCTCCTCCACCTCCTCCTGAGCCTGAAGAGCCTGCTGTGTCA
TTTGTTCATGCTGATACACTTCCTCAGCCATACGGAGGTCAAGCAAACTTGGGTTATATG
CTTCCAGGAATGGAGTACTATCCCGCTTCTGGTACAGATGGCACAAATGCCAGCTACTAT
ATGCAAGCGAGCGATTCTCATATTCTTCAATCGCAGCAGCATTCTTACTACGCACCGTTG
TCTGCAAGTGGCGTATCTATTCCTGTTGAGACCACATCGATCCCCCCAGTACCAGGTTCT
TATTATAGCTATCCTTCTGTCACTATGGCTGCCACTGAAGTAGCGGCTGAATCTTCTGGA
TACTATGGTTCATCAACCTCTGCCATTTCTAGCGGTGAATTAGATAACAAAACAAGCTCA
GCCTCCCTTGTTTCAAATAGTAATGTGAATCCTGTGGAGTCTGATAAAGTGATATCCAAG
GAGCCTACAGTTGTTTCTTTGAGCCAATCAGTAGGGGCAGCCTCAGCTTCAGCACCAACA
GTACATGGTAGTTCTACTCTAGCTTCTACTAGTACCACTAATCAGACTAAAGTTCCTCGT
ACTAAGAAGCGACCTGTTGCTGTTGCATCATCACTGAGATCTAATAAGAAGGTCTCAAGT
CTGGTGGATAAGGCAGAGCAATCTGTTTACATGGTAATTGGTAAGGCTTAAGACAAGTGG
AAAGCTGCAAAAGAGGAGCTTTGTGATGAAGAGGAAGAGGAGCCTGAAGATGCTTTGGAG
TACCTAGAAAGGAAACGTCGGAAGGAAATAGATGGGTGGCGTAAGCAACAAATAGCTAGT
GGAGAAGCTAAGGAAAATGCTAATTTTGTTCCCCTTGGCGGTAACTGGCGTGACCGTGTA
AAACGCAAAAGAGCTGAAGCAAAGAAGGAAGCAAAGACTGAATCTGTTTGTGCAGCTGCC
GAACAACACAAAGGAGAGCCTGATCTCTCAGAGCTTTCCAAGGGTCTCCCTTCTGGGTGG
CAGGCATACATAGACGAGTCTACGAAGCAAGTGTACTATGGGAACAACCTCACTTCCGAG
ACTACTTGGGATCGGCCTAGCAAATAAAGATTGAACTAGTTGAAGATGGTCCAGTTTTGC
TCTGTAGATATCCTCATACATCTATACGTTGCCTGTCTGGTTATGAGGCTGTATTGTTTC
TTTTATTTTCCACTGGGAGATCGTAGCAGGAAGGATACTTCATTTTGGTATATAGAGGCA
TCCCTTGTAAGAGTGGCAACTTGAGATCGAATTACTGAAGCAAAAAATACTAGTTAGTTG
CTGACCAAGGAAAAATGTGCCTTGTTAAGTGGTGGGAGTCTTTACCTCGATCTGATACCA
TTTGCTTTCAAAACAATGTCAATTATATTCGATTTTAGGTTGTGCTAAATTCTAGACTTC
TCCAATTATTTAACATTAGAAAGAAA



Protein Sequence (583 aa)

>BART1_0-u51812.013 583 150831_barley_pseudomolecules
MEAVPDSSGMQIVGDIGGNWKAIMHEQSNQCYYWNTVTGETSWEIPDGLASGVAGDGVTS
ASVPTHMGYSVEAQAHVLPHSNVEAYPSDVSVGNGTATYTAMGTYTHDAYAYTGAVASHE
SVDIDPLQLAKYGEDLLQRLKLLERPHVAIDSLELIKREIEIRVADCNALSSYGSSLLPL
WLHAEVHLKQLELSVSKFEASYTTRHGYLETVDAGHKAPNEAKVMAPSEGEHLKVDVSTL
GIGTGDENIKVEEPCTTSSAQNSQCVAAAILRVESDSDEDMDVDMEVDEEGVEEHGGFTS
MPNKEHPSSEQVRSPALSSLEDSAPPQQDNDIPPPPPPPEEEWIPPPPPENEPAPPPPPE
PEEPAVSFVHADTLPQPYGGQANLGYMLPGMEYYPASGTDGTNASYYMQASDSHILQSQQ
HSYYAPLSASGVSIPVETTSIPPVPGSYYSYPSVTMAATEVAAESSGYYGSSTSAISSGE
LDNKTSSASLVSNSNVNPVESDKVISKEPTVVSLSQSVGAASASAPTVHGSSTLASTSTT
NQTKVPRTKKRPVAVASSLRSNKKVSSLVDKAEQSVYMVIGKA