Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u35721.003

ChromosomeExonStartStopDirection
chr5H1405760512405760019+
chr5H2405761523405761364+
chr5H3405762633405762486+
chr5H4405762807405762730+
chr5H5405763442405763358+
chr5H6405765225405763535+
chr5H7405766075405765455+


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
morexEMB0.3967830.5853870.301766
morexETI0.5244980.5454620.520768
morexLEA0.61650.2263690.297714
morexEPI0.4391260.5862510.0497723
morexROO0.3584030.4218260.173225
morexROO20.6455110.460330.84198
morexNOD2.753781.578460.405604
morexRAC1.610121.219561.03544
morexINF10.4084890.1539590.317754
morexINF20.5322070.2470270.287556
morexCAR50.6845140.7773830.860053
morexCAR150.08771810.3284540.0513237
morexLEM1.312440.6776131.50709
morexLOD1.033750.9974041.07109
morexPAL1.683061.816072.2051
morexSEN0.2134820.511420.559789



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 (3277 bp)

>BART1_0-u35721.003 3277 150831_barley_pseudomolecules
CAGTTTTTGAGCCAATTGGGCTGGGCCAGCGGGCCTGTTGGAGTAGCTAAACTAACCAGC
TCGTCCATTTCCGCTCGCCTAATCCCTCCCGTCTTTCTCTACACTCGTCTGCTGCATCTC
AGATCTCGCGGGCACCAACAAACCAAAGCAAAGCTCTCCCGCTGTCCCGATCACTCTCCC
TTCCAGGTAACTCCTCCTCTCTAGATCTCCCCCACCTCCATCCTCGGCAAGTCTCAGCTG
ATTAATCCCATGCGCGCGTTCGCTACCTGTGATCCGCGCGTCCGTCAATCATCTCGACAT
CTTTCGTTGCATGGTTTTCAGCCCGGATCTGACGAGAACGGGCCGTTCAGATCCGAGCTG
TGTTATCGCCATTTGGTTTTGAGCCGCTTCTGTTGATCTTACCTGTCTAGGTGCGTTTCT
TTCTTCGGCAGGAAGCTTGGACCGGAGGAAGGTGCTGAGAGGGCGGAAAGGAGGCCATGG
GGGAATTCTCCAAGGAATCTTGCCCGTCTGTGAAGAACATTTTGCTACTGGATTCTGAGG
GAAAGCGCGTTGCTGTGAAGTACTTCTCGGATGATTGGCCGAACAACGCATCTAGGTTGA
CCTTTGAAAAGTCCATTTTTACTAAAACTCTGAAGACAAATGCACGCTCAGAAGCTGAGA
TAACATTGCTTGATGGTAATATTGTTGTTTACAAGTTTGTACAAGACCTTCACTTCTTCG
TCACTGCCGGAGATGATGAGAATGAGCTAATCATAGCAAATGTGCTACAGGGTTTTGCTG
ATTCGGTTGGTCTTCTACTCAGGGGTGACGTTGAGAAGAGGACTGCACTTGAGAACTTGG
ACTTGATACTTCTCTGCATTGATGAGATTATTGATGGCGGCATAATTCTTGAAACAGATG
CGAATACCATTGCGGGGAAGGTTGCAACCAATGCTGCTGACGGTTCTGTTCCCTTCTCTG
AGCAGACAATATCCCAAGCTCTGGCCACAGCCAGGGAACACTTTGCAAGATCTCTTCTGA
AGTGAGAAACCACTGCTTCTTCTGTCACCCCTGTTACAACTTGTGTGTGTTTGAGGTCTG
GCTACTATGCTATAGGCCTGGTAGCGGTCACTTAACCAGAAGCGCAACTGTGACAGACAG
ATTTGTCTGGATTCTTCTTAAATGATATGTAATACTATTTTCTCGTCAAATGCATGCTGC
GTGTCGTACATTTTCTGGAGGTATAGAGAAATAATTTTTGACGTTAATCCAATTTCTGCT
AAATAACACTCTTCTCAAACCGGAAAGGGCGGATATCGCTTCAACTTTTTTTTTTTTTTT
TTGCCTTTCGTTTATTTCTTTACAAGAATTATGTGTGTTCCCAAGCATGAGCCAGAAGTG
GCCTTATTGATGAAGCGTTATTGCTAGGGGTGTTATGTTAGGAGATGAACCTCTGAAGTC
TTATAGGCAGCCCAAATGTGTGCAAGAGGGATGTTTAGCCTCCCGTACAATAGTCATTGA
GACAAGTGCCGAATATTCTATGTTAGCCTTCACGGGAGAAAAAAATGAAATTAAAGGGAC
CAGAGGAAAATTGAAGGAAGAACAACGAAAGGGGTTTGTCCCCAGGGCTGTGAAGTTCAG
ATCTACCACCCCATCTCTGTAAAGTTATGGTTCCACCATCTTTGATGAGTTTATTCTAAT
CCTTACCTTTTGCAACCCTAAATCTTACTGTTGTCATCTAAGACAGTGATATCTTAATGC
ATGAAAGCCTCTAAAGCTACTTAGAGAAGAACCTCTAGTGTCCCACATTTGAATGGCTTC
ATCTAGTGGGTTTTACCCTAATTTAGGGAGTTTCCCACGTTAATATTTGGTGTATATGTG
TGTTTATATTGATGTTACATTTTTGTAGAAGAATGTCTAGAAGCACTTAGTACTTGTCCT
AGATATGTGTTGGAAGCACTCAGGGAGAAAAGAAAGTACTTCCGCTCGCTGCTTGCATGA
CCGCACAAGGCAGCTGAGGCAAGAACAGAATTCAGAAAGGTGCGCTCCTGCCCTGCGCAC
CGCGTCGGCCGTCACTCCGGCGTCGGCGGCCACCAGTCTCGCCGCTCCCCACTCCAGGGA
CGGCGCCTACCTCCCGCTCCTAGGTGCCATGGCCTCTAGGGTCTTCCTGTCCAGGCCCCT
CTCGCTGGAGCCCGACTCCCCCCCGCAGTCTTCGCCAAGATCCCGTTGCATGGTCGCGGC
CTCAGCTCAGATCTCTCATCGTGCCGTAGATCCTGGGCACCGCCTTCGGTCCGCTGACCG
CTCGTGCAGGGTGGCGGCACGGGGGCCTCTTGCGCCCCCACTCATCCTCCGGCGAATGGT
GGGTGGCAGACCAAGATGGGTCGTCGCCCGCGGGCTCCGCCTGTCCGTGCCCCACCTGTG
CGACGTCGGCGCCTGGCGGGGCGGCCCCGTGCACTGCCGGCCCCTCGACCGCCGCCCTCC
TCAAGGCCACCCCCGAAGCTTCATGGATGCTGCTACAACTGCAGGAGTGATGGGCATATC
TATGTCGACTGCACGAATCCTACGTTCCGTGTCCCGGTGCCGTGGGGCCGGTCACACGTC
GCGCGGGTTTACGTGTCCCCGCAGCCCCTCTCCGGTGGAGAAGCCGTCGCGTCCCCCGCC
GGCCCTCCGCTCTAAGGTTTACCCTACCAAACGAATTTCAAATGCCACAAAACTTTAATA
TGATTTTTTCTGGACTATATGAAGACCTGCAAGCATCAGAAGTGGACGAGAGGCCGAACG
AGGTAGGCACAAGCCAACAGGGCGCGGCCGCGCCCTAATGACTTGTGCCCCCCTAGATGC
CTCCCGCCGTCCCTCTCTGACCTATAAATTCACAAATATTCCGATGCACTCCCGAAACAC
TTTTTCCGCCGCCGCAAGTCTCTGTTCTGACGGAAGGCCATCTAAACCTCCATTCCGGCG
ATCTGTCGGAGGGGAGATCAGTCACGGAGGGCCTCTACATCAACCTTGTTGCCCTCACCG
TGATGTGTGAGTAGTTTACCACATACCTACGGGTCCGTAGGCAGTACCTAGATGACAATC
TCTCTCTCTTATGATCTTCAATACCATGTTCATCGCATCTTCGCTTTGATCTATCCGATG
TAATCACTATGTATGGTGTGTTTGTTGGGGTCCGATGAATTGTGGGTTTATGTTCAGATT
ATTCATGAAAAGTATTTGAGTCATCTCTGATTATTATGATTCTTAATTGCATGATCATCA
TAGCTTCATAATGCTCTTCGATCTATTGAGATAGTTT



Protein Sequence (257 aa)

>BART1_0-u35721.003 257 150831_barley_pseudomolecules
MCWKHSGRKESTSARCLHDRTRQLRQEQNSERCAPALRTASAVTPASAATSLAAPHSRDG
AYLPLLGAMASRVFLSRPLSLEPDSPPQSSPRSRCMVAASAQISHRAVDPGHRLRSADRS
CRVAARGPLAPPLILRRMVGGRPRWVVARGLRLSVPHLCDVGAWRGGPVHCRPLDRRPPQ
GHPRSFMDAATTAGVMGISMSTARILRSVSRCRGAGHTSRGFTCPRSPSPVEKPSRPPPA
LRSKVYPTKRISNATKL