Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53703.088

ChromosomeExonStartStopDirection
chr7H1385863972385861708-
chr7H2385864284385864078-
chr7H3385865991385865930-
chr7H4385866338385866227-
chr7H5385866611385866409-
chr7H6385867084385867000-
chr7H7385867226385867200-
chr7H8385867533385867389-
chr7H9385871248385871162-
chr7H10385872382385872313-


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
morexEMB000
morexETI000
morexLEA000
morexEPI00.4999130
morexROO000
morexROO2000
morexNOD000
morexRAC000
morexINF10.28436600
morexINF2000
morexCAR5000
morexCAR1500.008679140
morexLEM000
morexLOD00.08555560
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06110.2 +3 0.0 696 437/609 (72%) protein|MYB family transcription factor, putative, expressed
TAIR PP10 AT2G46830 @ ARAPORT
AT2G46830.1 @ TAIR		 +3 4e-38 152 71/91 (78%) Symbols: CCA1 | circadian clock associated 1 | chr2:19246005-19248717 FORWARD LENGTH=608
BRACH PP3 Bradi3g16515.1.p +3 0.0 748 463/602 (77%) pacid=32817815 transcript=Bradi3g16515.1 locus=Bradi3g16515 ID=Bradi3g16515.1.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 (3263 bp)

>BART1_0-u53703.088 3263 150831_barley_pseudomolecules
TTCGTCCGGAAGCATCGGCCGGTGGCGGCAGAGAGAGGAGCTCCTGCGCCCGGCGCGGCG
GTCGGTTGAGGCATACTATGTTGTCCTTAAATAACGTGGTTCAGGTTGTGGGAGATAAAC
TCATGGATGCTCCTTCAAAGGTATACTGTTAGTGGAGGTGTAGGAAGTGTTAAGGGGATA
CATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGC
CCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTC
AGGTCATGGGATTTGTTTGTCCTTAGCAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTC
TGCTGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGT
TTAGGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAA
GGAGGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCA
GCACTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTG
AGGAAACGGTGATAAAGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGA
CTGAGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGC
GCATAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGT
TCTTCACAAAGTTGGAAAAGGAAGCTATCAACAATGGTACTTCTCCAGGACAAGCTCATG
ATATAGACATACCTCCACCACGGCCTAAAAGAAAACCTAACTGTCCATATCCTCGAAAAG
GTTGTCTCAGCTCTGAGACACCCACCAGAGAAGTTCCAAAATCAAGTGTTAGCTTGAGCA
ATAGCAATTCACAAATGGAAAGCAATGGAACTCTTCAGGTCACCAGCACTCAGAAACTTC
AAAGGAAGGAGTTGTCTGGAAACGGCAGTTGCTCAGAAGTTATTAATATCTTTAGAGAAG
CACCATCTGCCTCATTTTCTTCCTCTAACAAGAGCTCTTCAAATCATGGTGTCTCTGGGG
GAATTGAACCGACTAAAACAGAAATCAAAGATATGGCAGCCATGGAAAGGAAATCTACTT
CCGTTGATGTGGCGAAGGATGTAAAAGATATTAATGACCAGGAAATGGAAAGGAACAACA
GAGTCCACATCAGTTCTAAATATGACCGTTCTCATGAAGATTGTTTGGATAGCTCAATGA
AACACATGCAGTTGAAGCCAAATACTGTGGAGACAACATACACGGGTCAACATGTTGCAA
GTGCTCCACTCTACCAAATGAATAAGACTGGGGCAACTGGCACTCCAGACCCTGGAACTG
AAGGAAGTCATCCTGATCAAACGAATGATCAAGTGGGAGGAGCTAATGGAAGTATGGACT
GCATCCATCCAACACTTCCCGTGGATCTAAAATTTGGCAGCAGCTCCACAGCGCAGCCCT
TTCCCCACAACTATTCAGGCTTTGCACCAACGATGCAATGCCAGTGCAACCAAGATGCCT
ACAGGTCATCTGTTGATATGTCGTCCACCTTCTCCAACATGCTCGTTTCCACATTGTTAT
CAAACCCCACAGTACATGCAGCTGCAAGGCTTGCAGCATCATACTGGCCAGCAGCAGACA
GCAACATCCCTGTCGATCCAAATCAAGGAATTTTTGCTCAGAATGCTCAAGGAAGACATA
TTGTTTCTCCTCCAAGCATGGCTTCTGTGGTAGCAGCTACAGTTGCTGCGGCTTCGGCAT
GGTGGGCAACACAAGGTCTTCTCCCTCTTTTTGCTCCCCCCATGGCTTTTCCATTTGTCC
CAGTTCCTACCGCTTCCTTTCCCACAGCGGATGTCCAGCGAGCTACAGAGAACTGCCCAG
TGGACAACGCACCAAAGGAATGCCAAGTAGCTCAGGGGCAAGGTCAACCTGAAGCTATGA
TAGTTGTAGCATCTTCTGGGTCCGGCGAGAGTGGAAAAGGAGAGGTGTGTCCTCACACTG
AGTTAAATATATCTCTGGCTGATAAAGCTGAGACAACACCTGCCACAGGAGCTGAAACAA
GTGATGCTTTGGGCAACAAGAAGAAGCAGGATCGCTCTTCATGTGGTTCCAACACACCAT
CAAGTAGTGATGTAGAGGCAGAACATGTTCCTGAGAACCAAGATCAAGCTAACGACAAGA
CACAGCAAGCATGTTGCAGTAATTCTTCAGCTGGTGACATGAACCATCGCAGGTTTAGGA
ACATTTCAAGCACGAATGATTCATGGAAGGAAGTTTCCGAGGAGGTTGTAGTCTACCAGC
ATTGCCGAATTTCATTTCTATGTTACTCTTGAGCATCTATCACTGCTTTTCTAATTCACA
TTTCTGCTGTCAGGGTCGTATGGCTTTCGATAAACTGTTCAGTAGAGGAAAGCTTCCCCA
AAGCTTTTCTCCTCCACAAGCAGAAGGATTGAAGGTGGTTCCCAGAGGGGAGCAAGATGA
AGCTACTACGGTGACGGTCGACCTCAACAAGAGTGCTGCAGTTATGGACCATGAACTTGA
CACATTGGTTGGGCCAAGAGCTTCCTTTCCCATTGAATTGTCACACCTGAATATGAAATC
CCGCCGGACAGGCTTCAAACCTTACAAGAGGTGCTCGGTGGAAGCAAAGGAGAATAGGGT
GCCGGCTGCTGACGAGGTTGGTACCAAAAGGATTCGCCTTGACAGCGAACCCTCCACGTG
ATTTACTTCCCACGACATGATTACCAGCCTGCACAAGTAGTGTATTTTCAAGAAATTGCG
GTATTTACATCTAAGCTACTATAGGACTTGCCAGTCCTTGCAATGCAGTGTTTCACAGAA
CTCAATTTGTTATGTGTTGTATGTTAATGCTTGCCGAGCAGCCCTTTTAGACTGTCAATT
AAGCATTAAGCACCTATGCATGCTACTTTATTGGTAAAAAAGTAATTCTGCTTATTTTTC
TGTGATGAAGGATAATACTTGTAATTTTGCTTCATTTTACTGGATCATGTAGATTTAATT
CCCGAAGGGAGAGCATGATCGCCTTGTGTTATTTTTATTTTCTTGAGAAAAATATTGTGC
TATGTATATGCACCCTAGATTTGAAGTTTCTTGGATGGTCCAGCTTTCTCAAACAGTGTA
CTTCTTTTAATTTAAAATAAAAT



Protein Sequence (617 aa)

>BART1_0-u53703.088 617 150831_barley_pseudomolecules
MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ
IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP
KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS
SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE
DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG
GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN
MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA
TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG
QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS
SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS
EEVVVYQHCRISFLCYS