Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u30598.004

ChromosomeExonStartStopDirection
chr4H1574820351574820145+
chr4H2574820541574820449+
chr4H3574820930574820755+
chr4H4574821065574821019+
chr4H5574822272574822203+
chr4H6574822810574822584+
chr4H7574822997574822908+
chr4H8574823189574823114+
chr4H9574823585574823332+
chr4H10574827612574827496+
chr4H11574829206574828831+


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
morexEMB0.7029950.691390.236899
morexETI0.0030418900.36688
morexLEA0.64304700
morexEPI0.5930660.2989950.326628
morexROO0.021350300
morexROO20.66785301.27876
morexNOD00.367240
morexRAC0.8460200.61943
morexINF10.0033743400.982088
morexINF200.7387350.369131
morexCAR5000
morexCAR150.06101280.6742910.196308
morexLEM00.9497491.50428
morexLOD1.27982.446220.833522
morexPAL0.9573090.00000102850.0000528354
morexSEN00.000003236360



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g10460.1 +2 0.0 526 289/363 (80%) protein|expressed protein
TAIR PP10 AT2G18410 @ ARAPORT
AT2G18410.1 @ TAIR		 +2 7e-76 245 147/365 (40%) Symbols: | FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Histone acetylation protein 2 (InterPro:IPR019519); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink). | chr2:7990768-7992588 FORWARD LENGTH=374
BRACH PP3 Bradi1g71057.2.p +2 0.0 594 312/363 (86%) pacid=32795801 transcript=Bradi1g71057.2 locus=Bradi1g71057 ID=Bradi1g71057.2.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 (1733 bp)

>BART1_0-u30598.004 1733 150831_barley_pseudomolecules
CGGGAGGCGCCGCCGGCGACGACGACGGGGAGCTGAGATGGCGGACGCGGCCGTGAGGTG
CCTCCGGGACGGCCGCCTCGACGGCGAGCACGCGCCAGCGCTGGCCGTGGAGGGCTCCCT
CCAGTGCTGCCCCCTCGCGGCGCGCGCCATGCTCCACGTCGCCGCCGCCGTCGCCTCCAA
CGCGGCCGCGGGGAAGGCGCAGGCCAGGGGACTTGTGGTTGTGGCGTTTGACCGGAGCCC
GGAAGTTTACCTGGATGCCATGCTTCGGCACGGCCTTGATTCGAATGCACTGAGTCGATG
TGTTCGGATATTGGATTGCTACTCAGACCCACTCGGGTGGAAGAAAAATATCCGAAGTCA
GCAGCATCATGAGGACAGTGGAACACCGTGCTCATCAAACAAAGGCAACATCACAATTTT
CAGAAGCGTGAAGGATGTTGATAAGTTATCGTGCTCCATAATTGATCTTGGAAGAGGGTT
TGAAGGAGAAGGCAAGACCTATTTTTCTGTTGCTCTCGATTCAATTAGCTCTATGTTAAG
GCATGCTTCAGTGCAATCAATTTCAGGCCTTCTTAGTAATCTTCGGAGCCATGATCAGAT
ATCATCAATCTTCTGGCTAATGCATTCAGATCTCCATGAAACCAAGTTTTCCCGAGCTTT
TGAATGCCTTTCTACCATGGTTGCTTGTGTAGAGCCAGAAGTTGTAGATTCTGTATATGG
AGAAGAACGTAGGGGGGACATGTCTTTCCTTGAGCATAACTATTCGAAAGCAAAGTTCCA
TGTGCGCCTGAAACGAAGGAATGGACGGGTGAAGCATCTGCATGAGGAGTTATGTGTTGA
GGGATATGATGTAAAATTTGTTTCTGCTACTTCTGTAAGTATGGAAGTGAACCAAAGTCT
ACTACCTAAGGTTCAGTTCAATCTTGAGCTGTCAGAAAAGGAACGGAGTGACAGGGCAAA
TGTTGTTCTTCCTTTCGAACATCAAGGAAAGGGCGAGCCAATCCGTATATATGATGGACG
GCGATCTCTCCCGGAGGCTCGTCAAGATCTCAATTTTACTACGGCAGCTCTCCTGGATGA
AACAGAAGCTCTTAAATCTGCAGACACGAAGGGTGAAATTCATTACCTTCGTGATTCTGA
TGATGAGCGACCTGACTCGGATGAAGACCCCGATGATGATTTGGATATTTAGCCACAATG
TGAGCTCTGTTTATCCTAGTGGTCAGCTATCAAGTCAAAGACCAAAATGCGCTATGCGTT
GCAGATCCTCTTCAACGACTCCAACCAACAACGTGGTCAAATACGAGACTCTCATTCATG
GTTTGCGTTTGGCCATCTCCATGGGCATTCACAAGAGGAACATCAGGCGCTTGCGAAAAT
TCTAGGAGGCGTTCACTTTGCGTGGGCGGCTGGAGCTACTGCATAGTTATGGTTGAACAA
TTTAAGCACCTGTATTATGTATAGCTTCGTGAGCATTGGAAGGCAACCTTTGCAAATCAC
TGGGTTTGAAATTTCTTGGATGCTCAAGACTAATGTGTTGATGGTAGCATATCGAATGAA
AGGTCATATGCCCCAATGCGATTTTGTAGTTTTGTTTCGACGTGGATGAATGTTGGCTAG
TGTGTCAGTCGCTGAAATGGGTCCAGAACAAGAGGATGCGACATGTAACACTGTTTTTTC
AGTTATATGAGAATATACACCGGGCTATTTGTTTGCTGGATGCTTACTTCTGT



Protein Sequence (384 aa)

>BART1_0-u30598.004 384 150831_barley_pseudomolecules
MADAAVRCLRDGRLDGEHAPALAVEGSLQCCPLAARAMLHVAAAVASNAAAGKAQARGLV
VVAFDRSPEVYLDAMLRHGLDSNALSRCVRILDCYSDPLGWKKNIRSQQHHEDSGTPCSS
NKGNITIFRSVKDVDKLSCSIIDLGRGFEGEGKTYFSVALDSISSMLRHASVQSISGLLS
NLRSHDQISSIFWLMHSDLHETKFSRAFECLSTMVACVEPEVVDSVYGEERRGDMSFLEH
NYSKAKFHVRLKRRNGRVKHLHEELCVEGYDVKFVSATSVSMEVNQSLLPKVQFNLELSE
KERSDRANVVLPFEHQGKGEPIRIYDGRRSLPEARQDLNFTTAALLDETEALKSADTKGE
IHYLRDSDDERPDSDEDPDDDLDI