Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u35721.001

ChromosomeExonStartStopDirection
chr5H1405760204405759987+
chr5H2405760512405760450+
chr5H3405761523405761364+
chr5H4405762633405762486+
chr5H5405762807405762730+
chr5H6405763442405763358+
chr5H7405766076405763535+


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
morexEMB0.7731870.895660.711145
morexETI0.2777490.445990.396074
morexLEA0.86276400
morexEPI0.6060720.7381310.660032
morexROO0.8145830.865980
morexROO20.3718210.3100430.494453
morexNOD1.180250.08265790.679366
morexRAC2.166192.952572.86653
morexINF11.634751.318531.48138
morexINF21.937062.53843.52796
morexCAR50.997151.644280.831573
morexCAR1500.2500170
morexLEM0.09119130.5572270.423614
morexLOD1.695573.100161.64536
morexPAL0.3348470.1601170.637823
morexSEN0.1756510.2216540



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g21250.2 +3 1e-93 297 171/183 (93%) protein|clathrin adaptor complex small chain domain containing protein, expressed
TAIR PP10 AT3G09800 @ ARAPORT
AT3G09800.1 @ TAIR		 +3 3e-68 226 127/178 (71%) Symbols: | SNARE-like superfamily protein | chr3:3006731-3007916 REVERSE LENGTH=179
BRACH PP3 Bradi4g08770.4.p +3 3e-98 309 178/183 (97%) pacid=32783612 transcript=Bradi4g08770.4 locus=Bradi4g08770 ID=Bradi4g08770.4.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 (3294 bp)

>BART1_0-u35721.001 3294 150831_barley_pseudomolecules
CTCAGTTTTTGGCTATGGTATGTGGCCCGTCTCAGTTTTTGAGCCAATTGGGCTGGGCCA
GCGGGCCTGTTGGAGTAGCTAAACTAACCAGCTCGTCCATTTCCGCTCGCCTAATCCCTC
CCGTCTTTCTCTACACTCGTCTGCTGCATCTCAGATCTCGCGGGCACCAACAAACCAAAG
CAAAGCTCTCCCGCTGTCCCGATCACTCTCCCTTCCAGGAAGCTTGGACCGGAGGAAGGT
GCTGAGAGGGCGGAAAGGAGGCCATGGGGGAATTCTCCAAGGAATCTTGCCCGTCTGTGA
AGAACATTTTGCTACTGGATTCTGAGGGAAAGCGCGTTGCTGTGAAGTACTTCTCGGATG
ATTGGCCGAACAACGCATCTAGGTTGACCTTTGAAAAGTCCATTTTTACTAAAACTCTGA
AGACAAATGCACGCTCAGAAGCTGAGATAACATTGCTTGATGGTAATATTGTTGTTTACA
AGTTTGTACAAGACCTTCACTTCTTCGTCACTGCCGGAGATGATGAGAATGAGCTAATCA
TAGCAAATGTGCTACAGGGTTTTGCTGATTCGGTTGGTCTTCTACTCAGGGGTGACGTTG
AGAAGAGGACTGCACTTGAGAACTTGGACTTGATACTTCTCTGCATTGATGAGATTATTG
ATGGCGGCATAATTCTTGAAACAGATGCGAATACCATTGCGGGGAAGGTTGCAACCAATG
CTGCTGACGGTTCTGTTCCCTTCTCTGAGCAGACAATATCCCAAGCTCTGGCCACAGCCA
GGGAACACTTTGCAAGATCTCTTCTGAAGTGAGAAACCACTGCTTCTTCTGTCACCCCTG
TTACAACTTGTGTGTGTTTGAGGTCTGGCTACTATGCTATAGGCCTGGTAGCGGTCACTT
AACCAGAAGCGCAACTGTGACAGACAGATTTGTCTGGATTCTTCTTAAATGATATGTAAT
ACTATTTTCTCGTCAAATGCATGCTGCGTGTCGTACATTTTCTGGAGGTATAGAGAAATA
ATTTTTGACGTTAATCCAATTTCTGCTAAATAACACTCTTCTCAAACCGGAAAGGGCGGA
TATCGCTTCAACTTTTTTTTTTTTTTTTTGCCTTTCGTTTATTTCTTTACAAGAATTATG
TGTGTTCCCAAGCATGAGCCAGAAGTGGCCTTATTGATGAAGCGTTATTGCTAGGGGTGT
TATGTTAGGAGATGAACCTCTGAAGTCTTATAGGCAGCCCAAATGTGTGCAAGAGGGATG
TTTAGCCTCCCGTACAATAGTCATTGAGACAAGTGCCGAATATTCTATGTTAGCCTTCAC
GGGAGAAAAAAATGAAATTAAAGGGACCAGAGGAAAATTGAAGGAAGAACAACGAAAGGG
GTTTGTCCCCAGGGCTGTGAAGTTCAGATCTACCACCCCATCTCTGTAAAGTTATGGTTC
CACCATCTTTGATGAGTTTATTCTAATCCTTACCTTTTGCAACCCTAAATCTTACTGTTG
TCATCTAAGACAGTGATATCTTAATGCATGAAAGCCTCTAAAGCTACTTAGAGAAGAACC
TCTAGTGTCCCACATTTGAATGGCTTCATCTAGTGGGTTTTACCCTAATTTAGGGAGTTT
CCCACGTTAATATTTGGTGTATATGTGTGTTTATATTGATGTTACATTTTTGTAGAAGAA
TGTCTAGAAGCACTTAGTACTTGTCCTAGATATGTGTTGGAAGCACTCAGGGAGAAAAGA
AAGTACTTCCGCTCGCTGCTTGCATGACCGCACAAGGCAGCTGAGGCAAGAACAGAATTC
AGAAAGGTGCGCTCCTGCCCTGCGCACCGCGTCGGCCGTCACTCCGGCGTCGGCGGCCAC
CAGTCTCGCCGCTCCCCACTCCAGGGACGGCGCCTACCTCCCGCTCCTAGGTGCCATGGC
CTCTAGGGTCTTCCTGTCCAGGCCCCTCTCGCTGGAGCCCGACTCCCCCCCGCAGTCTTC
GCCAAGATCCCGTTGCATGGTCGCGGCCTCAGCTCAGATCTCTCATCGTGCCGTAGATCC
TGGGCACCGCCTTCGGTCCGCTGACCGCTCGTGCAGGGTGGCGGCACGGGGGCCTCTTGC
GCCCCCACTCATCCTCCGGCGAATGGTGGGTGGCAGACCAAGATGGGTCGTCGCCCGCGG
GCTCCGCCTGTCCGTGCCCCACCTGTGCGACGTCGGCGCCTGGCGGGGCGGCCCCGTGCA
CTGCCGGCCCCTCGACCGCCGCCCTCCTCAAGGCCACCCCCGAAGCTTCATGGATGCTGC
TACAACTGCAGGAGTGATGGGCATATCTATGTCGACTGCACGAATCCTACGTTCCGTGTC
CCGGTGCCGTGGGGCCGGTCACACGTCGCGCGGGTTTACGTGTCCCCGCAGCCCCTCTCC
GGTGGAGAAGCCGTCGCGTCCCCCGCCGGCCCTCCGCTCTAAGGTGACCACGTCCCCAAG
CCCCGACCACGCAGTCTCCTTCCGATCTGCCACTCCGTCGCCTGGCTCGTTTCGAACATA
TCTATACTTTTTAATTGTTCATGCTGATATGTTATTATTGTAAGATACTTTTTGTGCAGT
CATATGCCAATTTATAATATTTTTGAGCACTAGCCTATTGACCCAGTGCCCAGTGCTAGT
TCCTATTTTATGCGTGTTTTTTTGCTTTGCAGGTTTACCCTACCAAACGAATTTCAAATG
CCACAAAACTTTAATATGATTTTTTCTGGACTATATGAAGACCTGCAAGCATCAGAAGTG
GACGAGAGGCCGAACGAGGTAGGCACAAGCCAACAGGGCGCGGCCGCGCCCTAATGACTT
GTGCCCCCCTAGATGCCTCCCGCCGTCCCTCTCTGACCTATAAATTCACAAATATTCCGA
TGCACTCCCGAAACACTTTTTCCGCCGCCGCAAGTCTCTGTTCTGACGGAAGGCCATCTA
AACCTCCATTCCGGCGATCTGTCGGAGGGGAGATCAGTCACGGAGGGCCTCTACATCAAC
CTTGTTGCCCTCACCGTGATGTGTGAGTAGTTTACCACATACCTACGGGTCCGTAGGCAG
TACCTAGATGACAATCTCTCTCTCTTATGATCTTCAATACCATGTTCATCGCATCTTCGC
TTTGATCTATCCGATGTAATCACTATGTATGGTGTGTTTGTTGGGGTCCGATGAATTGTG
GGTTTATGTTCAGATTATTCATGAAAAGTATTTGAGTCATCTCTGATTATTATGATTCTT
AATTGCATGATCATCATAGCTTCATAATGCTCTTCGATCTATTGAGATAGTTTG



Protein Sequence (283 aa)

>BART1_0-u35721.001 283 150831_barley_pseudomolecules
MCWKHSGRKESTSARCLHDRTRQLRQEQNSERCAPALRTASAVTPASAATSLAAPHSRDG
AYLPLLGAMASRVFLSRPLSLEPDSPPQSSPRSRCMVAASAQISHRAVDPGHRLRSADRS
CRVAARGPLAPPLILRRMVGGRPRWVVARGLRLSVPHLCDVGAWRGGPVHCRPLDRRPPQ
GHPRSFMDAATTAGVMGISMSTARILRSVSRCRGAGHTSRGFTCPRSPSPVEKPSRPPPA
LRSKVTTSPSPDHAVSFRSATPSPGSFRTYLYFLIVHADMLLL