Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u29392.001

ChromosomeExonStartStopDirection
chr4H1437920383437919872+
chr4H2437921901437921810+
chr4H3437922289437922152+
chr4H4437922435437922379+
chr4H5437922588437922516+
chr4H6437923067437922909+
chr4H7437923504437923355+
chr4H8437923835437923580+
chr4H9437924043437923928+
chr4H10437924264437924178+
chr4H11437924432437924344+
chr4H12437924580437924518+
chr4H13437924741437924685+
chr4H14437924951437924855+
chr4H15437925741437925033+


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
morexEMB17.093248.367739.2764
morexETI0.5815470.8243840.310722
morexLEA35.317214.64914.8065
morexEPI0.96747100.245477
morexROO2.2623328.630714.4331
morexROO26.505052.839363.33904
morexNOD101.156.553461.90487
morexRAC2.083322.532155.16658
morexINF169.509164.475545.7548
morexINF243.016342.910241.0213
morexCAR556.230950.570654.1551
morexCAR159.921239.4715910.1049
morexLEM2.018232.423262.18688
morexLOD2.542661.733190.912649
morexPAL1.448782.936397.46066
morexSEN0.8560531.039590.279686



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g19970.1 +3 0.0 986 479/538 (89%) protein|CAS1 domain-containing protein 1 precursor, putative, expressed
TAIR PP10 AT5G46340 @ ARAPORT
AT5G46340.1 @ TAIR		 +3 0.0 776 377/532 (71%) Symbols: | O-acetyltransferase family protein | chr5:18796361-18799725 REVERSE LENGTH=540
BRACH PP3 Bradi1g64180.1.p +3 0.0 1036 503/537 (94%) pacid=32801051 transcript=Bradi1g64180.1 locus=Bradi1g64180 ID=Bradi1g64180.1.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 (2655 bp)

>BART1_0-u29392.001 2655 150831_barley_pseudomolecules
TTGGAGATTATAATATTTTTTTTCTCCCGTTGCAACGCACGGGTCTTTTTGCTAGTAGCA
CCTAGAGGTGATGCTCACCCATCTATTACACCTTGGAAGTTAATTTTTAGGTAGCCGGAG
AAAAAAAAAGACGAGAAATCTTTCCCACCTAAATCTAACCTAACTCTTTCAGTTAGACTG
TCACTTGCAAATCGCACCGACTGTGGGTCCCGTTGTCCATCGCCGGTGGCCCCGCATGCA
GTGTCTGCGCGACTCTCCGTCCGTCGTATCACGCGTACCTCCATCCATCCTCGTTCCCAC
CTCGCCGTCCGCTTTAAACCGGAGAGGCCTTTTTGCTCTCACGCAAAGCCGCGCTTATTT
TCTCTCGGTTACCTAATTTTTGCCCCCTTCTCCTCCGATTCGCGTTTGGATCCCAGCGCC
AAAGCTTGGCGGATGCTGTAGAAATGGCGGAGGCGCTCGCGTCCGCGGGTGGGCTCGCCA
TGGCGGCCTCGACCTCTTTCACGCCCGGCCAGCTTTCTGCTTTTCTGGGATTTCTTTGGG
TTCTTGCGGCCTGGGTGTATGCGGAGGTTCTCTTTCATAGGAAGAATGCTGCTTCACTTA
AAACTAGACACTCGGACATCAATTTATCAGATATGGATAGTAGCTCAAACAAAGGAGAGG
ATCAAACAATGTTACTGGAGGAGGGTGGTCAAGTAGCTGGTGCAAAGCCAGTTTATGCTT
CTTTCACATCACAGATGCTCAGACTTTTCTGTATGGACCAGACACTTCTTCTGGAGCATC
GATTGACACTGAGGGCAATATCTGAGCTTGGAGGCCATCTACTTTACTTTTACATATGTG
ACCGCACAAATATATTCGGGGAATCTGGAAAGAATTACAGCCGAGATCTCTTCCTTTTCC
TCTATTTTCTTCTTATCATCGTAGCAGCTATTACTTCCTTCAAGATCCACCAAGATAAGT
CCACATTCACTGGAAAATCTATACTATATTTGAATAGGCATCAGACAGAAGAATGGAAGG
GTTGGATGCAGGTGCTATTCTTGATGTACCACTACTTCAATGCTAAAGAGATCTACAATG
CGATTCGTGTGTTCATTGCTGCATATGTCTGGATGACTGGGTTTGGTAACTTCTCCTATT
ATTATGTGCGGAAGGATTTCAGTCTGGGACGATTTGCTCAGATGATGTGGCGCCTCAATT
TCTTTGTGGCATTCTGTTGCATTGTCCTGAATAATGATTACACACTATATTATATTTGCC
CTATGCACACTCTTTTCACCCTCATGGTGTATGGTGCTCTTGGAATACTAAACAAGTACA
ATGAGATTAGATCAGTGATTGCTATAAAATTTGTTGGGTGCTTCTTGGTAGTTATCTTGG
TATGGGAAATCCCAGGTGTCTTTGAGATAGTCTGGAGCCCATTCACTTTTCTTCTAGGTT
ATGATGATCCTTCTAAACCAGATCTCCCTAGGTTGCATGAGTGGCACTTCCGATCTGGAC
TGGATCGCTACATATGGATTGTGGGGATGATATATGCCTATTACCATCCAACAGTTGAGA
AGTGGATGGAAAAGCTTGAAGAAGCTGAAACAAGAACGAAGCTCTATATTAAGGCCTCTA
TAGTTACAGTTTCTATAACGGCTGGGTATTTGTGGTACGAGTACATCTACAAGATGGACA
AGATTACCTACAATAAATACCATCCTTACACATCCTGGATCCCCATAACTGTTTACATCT
GCCTGCGCAACTTCACTCAAGAATTCCGGGCGTGCTCTCTCACGCTATTTGCCTGGCTTG
GAAAGATTACACTAGAAACATATATATCTCAGTTCCATATCTGGCTCAGATCAAAGGTGC
CCAATGGGCAACCCAAGTGGCTGTTGACGATAATCCCAGATTACCCACTGCTTAACTTCA
TGCTCACGACTGCGCTATATGTTGCGGTTTCCCATAGGCTCTTCGAACTCACTAATACTT
TGAAGATAGCATTTGTACCTCGTGACAACAAGCACCTCTCGTACAATTTTGTTGCAGGGA
TTGCCATTTCAGTTGCACTCTACTCTGTATCATTTGCCTTAGTTGGCATAGCAGGATACT
AGCAAATTTAGCCATTAGCTGTTAGTTCTAGTTATAGTCTAGGCTATCAACAAAGCTAGT
TTTGATCGTCGGTGAGATAAAAGTCAATGGGCGAAGCATGATTGACAGCGCATAAACTGC
TTCTCTTTCACCCTTGGCCTTGAGTCGGCGTGCACAAGTTTTAGTCTTGAATAGTGTAAA
ATGTACAATTTGCCACTATCATATCCTTGACATTGTTGGTTGTGAATGTAATTCTTGAGG
TTGAGTAATACAAGAATTTATTTTAAAAAAGTATTGCTTGTATAGATGTTGAAATGCATA
CCGGAGTGTAACAGCCTGAGACCGACGCTTCAGAAGATTCCCTTTTTATTCCAATTGTCG
TCCTGTGATTATTTTTTTTCGCAATCATCGTCGCATTATCTGCATTGCATCGGAACTCTG
TTGTCGCCAGTTTTTAAAACTTGCATCCATTATTAGTTGTCGTCTTTCTTCTTTTTTGTT
GTTGATCGTTTTGAGATCAACCACACGCGTCCGCGTTTGCAGCATTGTTAAAATATTGTT
CTAAATCACCCTGGG



Protein Sequence (552 aa)

>BART1_0-u29392.001 552 150831_barley_pseudomolecules
MAEALASAGGLAMAASTSFTPGQLSAFLGFLWVLAAWVYAEVLFHRKNAASLKTRHSDIN
LSDMDSSSNKGEDQTMLLEEGGQVAGAKPVYASFTSQMLRLFCMDQTLLLEHRLTLRAIS
ELGGHLLYFYICDRTNIFGESGKNYSRDLFLFLYFLLIIVAAITSFKIHQDKSTFTGKSI
LYLNRHQTEEWKGWMQVLFLMYHYFNAKEIYNAIRVFIAAYVWMTGFGNFSYYYVRKDFS
LGRFAQMMWRLNFFVAFCCIVLNNDYTLYYICPMHTLFTLMVYGALGILNKYNEIRSVIA
IKFVGCFLVVILVWEIPGVFEIVWSPFTFLLGYDDPSKPDLPRLHEWHFRSGLDRYIWIV
GMIYAYYHPTVEKWMEKLEEAETRTKLYIKASIVTVSITAGYLWYEYIYKMDKITYNKYH
PYTSWIPITVYICLRNFTQEFRACSLTLFAWLGKITLETYISQFHIWLRSKVPNGQPKWL
LTIIPDYPLLNFMLTTALYVAVSHRLFELTNTLKIAFVPRDNKHLSYNFVAGIAISVALY
SVSFALVGIAGY