Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u25305.001

ChromosomeExonStartStopDirection
chr3H1679660115679659657+
chr3H2679660340679660215+
chr3H3679661103679661062+
chr3H4679661262679661203+
chr3H5679661440679661378+
chr3H6679661746679661666+
chr3H7679662852679662778+
chr3H8679662990679662943+
chr3H9679663157679663089+
chr3H10679663373679663240+
chr3H11679663948679663873+
chr3H12679664766679664576+
chr3H13679665014679664934+
chr3H14679665376679665181+
chr3H15679666673679666485+
chr3H16679666829679666749+
chr3H17679667043679666924+
chr3H18679668390679668331+
chr3H19679668962679668530+


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
morexEMB2.3379312.536412.1944
morexETI16.515319.146220.4001
morexLEA12.01649.5659312.6111
morexEPI4.611727.230256.03722
morexROO3.478057.68162.47904
morexROO213.862413.631614.3082
morexNOD7.2872913.62529.67806
morexRAC22.384422.898224.266
morexINF137.97333.937130.8566
morexINF239.956944.509436.7682
morexCAR536.142524.191330.6747
morexCAR1524.792821.038423.0829
morexLEM23.16320.204118.9388
morexLOD28.173724.510827.6622
morexPAL18.228518.406217.8642
morexSEN11.565613.74329.97556



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g68810.1 +1 0.0 1188 580/684 (85%) protein|expressed protein
TAIR PP10 AT1G24706 @ ARAPORT
AT1G24706.2 @ TAIR		 +1 0.0 858 428/673 (64%) Symbols: THO2 | THO2 | chr1:8742210-8755250 FORWARD LENGTH=1823
BRACH PP3 Bradi2g58697.2.p +1 0.0 1289 617/655 (94%) pacid=32780756 transcript=Bradi2g58697.2 locus=Bradi2g58697 ID=Bradi2g58697.2.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 (2584 bp)

>BART1_0-u25305.001 2584 150831_barley_pseudomolecules
CCCCGCCGTCACAGCGCCTCGCCGGCTCTCCGCGACTCCCCCACCGTCCCACCCGAGCCC
GCTCCCCCGCCTCGCCGCTTTCCGGCGCGCCCCACCACCCCGCCGCCGCCGCCGCCACCC
ACCCTCGTCGGCGCGAGGCCGCGGCGGTTCCCCACGCCGTTCCGCCCCCGCCCGCCCCCA
TAGGTCGTCTCTCCGCTTCCAAGTCGCCTCGCCCGCTCGCCCCATCCTCCTCCTCTGACC
TTCACCACCTCCCATGAAACCCTAGCCAGTTCCCCTCCAAAACCCTGCCCCCGACACCCG
CGCACGCTCGCCATGTCGCCGCCCCCGCTCCAGGCGCCGGACTACAGGTACGTCACCGAG
GAGTGCCTCCGCGAATGGAAGGGCCAGTCCGCCGCCGCCTTCCGCCTCCCCGATCCGGTC
CCCATGGCCCGCTTCCTCTACGAGCTCTGCTGGGCGATGGTGCGGGGGGACCTGCCGCCG
CAAAAGTGCCGGGCGGCGCTGGATTCGGTGGTGTTCGTGGAGGAGGTGAGGCAGGAAGAG
TCCGGCTCCGTGCTCGCCGACATCGTCGCTCACCTAGGGCAGGATATTACCATTTCTGGT
GAATATCGCAGCCGTCTTGTCAAAATGACTAAGTCATTCGTGGAGTCTTCGTTGATTGCG
CCTAGGCTTCTTCAAGAACGATGTGAAGAAGAGTTCCTATGGGAGGTTGAACAGAGTAAG
TCAAAGGGCCAGGATTTGAAAGCCAAGGAGGTCAGAGTCAACACACGACTTCTGTATCAG
CAAACGAAATTCAACCTTCTAAGAGAGGAAAGTGAGGGCTACGCCAAGTTGGTAACCCTA
CTTTGTCAAGTAGGTTCAGATTTGGCTTGTCAAAATGCTTCTTCAGCAACTATCAGCATT
GTAAAGTCATTAATTGGACATTTTGACCTGGACCCGAATCGTGTATTTGACATTGTGTTG
GAATGTTTTGAACTCTATCCAGACAACAGTATCTTTTATCAGCTTATACCTCTTTTTCCA
AAGTCCCATGCTGCTCAAATTTTGGGGTTTAAATTTCAATATTATCAACAATTGGATGTA
AACAGCCCTGTTCCATCTGGTCTTTTCCGAATAGCAGCCCTGTTGGTCAAATCTGGTCTT
ATTGACCTTGATAATCTCTACGCTCATTTACTTCCAAATGACGATGAGGCGTTTGAGCAT
TTTGGCTCCTTTGTTTCAAGGAAAATTGATGAGGCTACTAAAATAGGCAAAATAAATCTT
GCTGCTACTGGAAAGGACCTTATGGACGACGAGAAGCAAGAAATAACGATCGATTTATAC
ACAGCATTGGAGATGGAAAATGATATAATTGATGAGCGAGCCCCTGAGATAGAAAAGAAC
CAGAAGCTTGGACTTCTTCTTGGTTTCCTCTCAGTCCATGATTGGGACCATGCGCAGCTA
CTATTTGAACGTCTTGTGCAGCTAAATCCTGTCGAGCACGTTGAAATTTGTGATGCTTTA
TTTAGAATTATTGAGAAGACTATTTCGTCAGCGTACAGTACATATTGTGAAACACATCAT
AAAATCACCCGCAACATTGACACTAAAATGATAGATGCATCATCTGTCTCTTCACATTTG
GTTGATCTGCCGAAAGAGTTTTTCCAAATGCTTGCTGCTTGTGGACCATACCTTCATCGT
GACACACAATTATTCCAGAAGGTTTGCAGAGTGTTAAGGGTGTACCTTGCCTCGTCAAAA
GAATCAGCCCGTACAGCGGGCATTATGTCTCCAGAATCTCGGGTCGAAGAAGCACTTGGG
TCATGCTTGCTTCCTTCATTGCAGCTTATACCTGCCAATCCTGCCGTTGATATGGAGATA
TGGGGAGTTCTTTCCCTTCTTCCTTACGAGGTGCGCTATCGTTTGTATGGTGAGTGGGAG
AAGGACACTGAACAAAACCCAATTGTCCTTGCTGCAAGGCAAACAGCAAAGCTGGACACG
AGACGGCTCTTAAAACGTCTGGCCAAGGAAAATCTGAAGCAGCTTGGCCGCATGGTGGCT
AAACTTGCTCATGCAAATCCAATGACTGTACTTCGGACAATTGTCCAACAGGTCGAAGCA
TACAGGGACATGATAAATCCAGTTGTGGATGCTTTTAAATACTTGACTCAGCTGGAATAT
GATATCTTGCAATATATTGTAATCGAACGGTTGGCTCAAGGTGGTCGTGAGAAAGTAAAA
GATGACGGCCTTAACCTGTCAGACTGGCTTCAGTGTCTAGCATCATTCTGGGGACACCTG
TATGTAGTTTTAACTCCTGCCTTCGATCATATTATTTACACAACACATGGTGTGGTGTAC
TTGTAGTTAAACCTGATGATCCAGTGACGTTTAATCATGTATGTTCTTGCTTATTTGGCA
CATCAAGTGCTTTTGTCATACGACTTCTCTAGAACAAACAGTGAGACTTATTTTGGGACG
GAGGAAGTACATCACAAGTAAAGGCGTCCTTGTTTTTCGATTGATGGCTCCCCGCTCCGC
TCCACCCTGCTCCCCGCTCCGCCCCCGCGCCCCGCTAGCCTGACTGCAGCGCCGCGTCGC
CCAC



Protein Sequence (677 aa)

>BART1_0-u25305.001 677 150831_barley_pseudomolecules
MSPPPLQAPDYRYVTEECLREWKGQSAAAFRLPDPVPMARFLYELCWAMVRGDLPPQKCR
AALDSVVFVEEVRQEESGSVLADIVAHLGQDITISGEYRSRLVKMTKSFVESSLIAPRLL
QERCEEEFLWEVEQSKSKGQDLKAKEVRVNTRLLYQQTKFNLLREESEGYAKLVTLLCQV
GSDLACQNASSATISIVKSLIGHFDLDPNRVFDIVLECFELYPDNSIFYQLIPLFPKSHA
AQILGFKFQYYQQLDVNSPVPSGLFRIAALLVKSGLIDLDNLYAHLLPNDDEAFEHFGSF
VSRKIDEATKIGKINLAATGKDLMDDEKQEITIDLYTALEMENDIIDERAPEIEKNQKLG
LLLGFLSVHDWDHAQLLFERLVQLNPVEHVEICDALFRIIEKTISSAYSTYCETHHKITR
NIDTKMIDASSVSSHLVDLPKEFFQMLAACGPYLHRDTQLFQKVCRVLRVYLASSKESAR
TAGIMSPESRVEEALGSCLLPSLQLIPANPAVDMEIWGVLSLLPYEVRYRLYGEWEKDTE
QNPIVLAARQTAKLDTRRLLKRLAKENLKQLGRMVAKLAHANPMTVLRTIVQQVEAYRDM
INPVVDAFKYLTQLEYDILQYIVIERLAQGGREKVKDDGLNLSDWLQCLASFWGHLYVVL
TPAFDHIIYTTHGVVYL