Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53703.057

ChromosomeExonStartStopDirection
chr7H1385863972385861691-
chr7H2385864284385864078-
chr7H3385865991385865930-
chr7H4385866338385866227-
chr7H5385866611385866409-
chr7H6385867100385867000-
chr7H7385867226385867200-
chr7H8385867533385867389-
chr7H9385872390385872313-


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
morexEMB00.07918860
morexETI000
morexLEA00.6172260.514853
morexEPI00.01884160
morexROO0.08380020.000000003737360
morexROO20.526850.3820460.102013
morexNOD0.5523540.4272242.87908
morexRAC000
morexINF10.0023219800.319659
morexINF20.4110920.2666760.220669
morexCAR5000.0522696
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN00.01042420.113557



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 (3217 bp)

>BART1_0-u53703.057 3217 150831_barley_pseudomolecules
CGGTTGGCTTCGTCCGGAAGCATCGGCCGGTGGCGGCAGAGAGAGGAGCTCCTGCGCCCG
GCGCGGCGGTCGGTTGAGGTGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTG
CGAGGCCCTGCATTTCTTCTGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATC
CATTCAAGCAAAGTACTGGAATTTCTGAGCCCAATTTATTCAGGTCATGGGATTTGTTTG
TCCTTAGCAGTTTAATCTGATTCTAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGC
TGATCCGGTTCATGCGAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTA
GGGGGAGGTATGAGATACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGA
GGAGTGCTGTTGTTTGTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCA
CTTCCTTTTGTTTTCGCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGG
AAACGGTGATAAAGGTGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTG
AGGCAGAGCACAAACGGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCA
TAGAAGAGCATGTTGGGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCT
TCACAAAGTTGGAAAAGGAAGCTATCAACAATGGTACTTCTCCAGGACAAGCTCATGATA
TAGACATACCTCCACCACGGCCTAAAAGAAAACCTAACTGTCCATATCCTCGAAAAGGTT
GTCTCAGCTCTGAGACACCCACCAGAGAAGTTCCAAAATCAAGTGTTAGCTTGAGCAATA
GCAATTCACAAATGGAAAGCAATGGAACTCTTCAGGTCACCAGCACTCAGAAACTTCAAA
GGAAGGAGTTGTCTGGAAACGGCAGTTGCTCAGAAGTTATTAATATCTTTAGAGAAGCAC
CATCTGCCTCATTTTCTTCCTCTAACAAGAGCTCTTCAAATCATGGTGTCTCTGGGGGAA
TTGAACCGACTAAAACAGAAATCAAAGATATGGCAGCCATGGAAAGGAAATCTACTTCCG
TTGATGTGGCGAAGGATGTAAAAGATATTAATGACCAGGAAATGGAAAGGAACAACAGAG
TCCACATCAGTTCTAAATATGACCGTTCTCATGAAGATTGTTTGGATAGCTCAATGAAAC
ACATGCAGTTGAAGCCAAATACTGTGGAGACAACATACACGGGTCAACATGTTGCAAGTG
CTCCACTCTACCAAATGAATAAGACTGGGGCAACTGGCACTCCAGACCCTGGAACTGAAG
GAAGTCATCCTGATCAAACGAATGATCAAGTGGGAGGAGCTAATGGAAGTATGGACTGCA
TCCATCCAACACTTCCCGTGGATCTAAAATTTGGCAGCAGCTCCACAGCGCAGCCCTTTC
CCCACAACTATTCAGGCTTTGCACCAACGATGCAATGCCAGTGCAACCAAGATGCCTACA
GGTCATCTGTTGATATGTCGTCCACCTTCTCCAACATGCTCGTTTCCACATTGTTATCAA
ACCCCACAGTACATGCAGCTGCAAGGCTTGCAGCATCATACTGGCCAGCAGCAGACAGCA
ACATCCCTGTCGATCCAAATCAAGGAATTTTTGCTCAGAATGCTCAAGGAAGACATATTG
TTTCTCCTCCAAGCATGGCTTCTGTGGTAGCAGCTACAGTTGCTGCGGCTTCGGCATGGT
GGGCAACACAAGGTCTTCTCCCTCTTTTTGCTCCCCCCATGGCTTTTCCATTTGTCCCAG
TTCCTACCGCTTCCTTTCCCACAGCGGATGTCCAGCGAGCTACAGAGAACTGCCCAGTGG
ACAACGCACCAAAGGAATGCCAAGTAGCTCAGGGGCAAGGTCAACCTGAAGCTATGATAG
TTGTAGCATCTTCTGGGTCCGGCGAGAGTGGAAAAGGAGAGGTGTGTCCTCACACTGAGT
TAAATATATCTCTGGCTGATAAAGCTGAGACAACACCTGCCACAGGAGCTGAAACAAGTG
ATGCTTTGGGCAACAAGAAGAAGCAGGATCGCTCTTCATGTGGTTCCAACACACCATCAA
GTAGTGATGTAGAGGCAGAACATGTTCCTGAGAACCAAGATCAAGCTAACGACAAGACAC
AGCAAGCATGTTGCAGTAATTCTTCAGCTGGTGACATGAACCATCGCAGGTTTAGGAACA
TTTCAAGCACGAATGATTCATGGAAGGAAGTTTCCGAGGAGGTTGTAGTCTACCAGCATT
GCCGAATTTCATTTCTATGTTACTCTTGAGCATCTATCACTGCTTTTCTAATTCACATTT
CTGCTGTCAGGGTCGTATGGCTTTCGATAAACTGTTCAGTAGAGGAAAGCTTCCCCAAAG
CTTTTCTCCTCCACAAGCAGAAGGATTGAAGGTGGTTCCCAGAGGGGAGCAAGATGAAGC
TACTACGGTGACGGTCGACCTCAACAAGAGTGCTGCAGTTATGGACCATGAACTTGACAC
ATTGGTTGGGCCAAGAGCTTCCTTTCCCATTGAATTGTCACACCTGAATATGAAATCCCG
CCGGACAGGCTTCAAACCTTACAAGAGGTGCTCGGTGGAAGCAAAGGAGAATAGGGTGCC
GGCTGCTGACGAGGTTGGTACCAAAAGGATTCGCCTTGACAGCGAACCCTCCACGTGATT
TACTTCCCACGACATGATTACCAGCCTGCACAAGTAGTGTATTTTCAAGAAATTGCGGTA
TTTACATCTAAGCTACTATAGGACTTGCCAGTCCTTGCAATGCAGTGTTTCACAGAACTC
AATTTGTTATGTGTTGTATGTTAATGCTTGCCGAGCAGCCCTTTTAGACTGTCAATTAAG
CATTAAGCACCTATGCATGCTACTTTATTGGTAAAAAAGTAATTCTGCTTATTTTTCTGT
GATGAAGGATAATACTTGTAATTTTGCTTCATTTTACTGGATCATGTAGATTTAATTCCC
GAAGGGAGAGCATGATCGCCTTGTGTTATTTTTATTTTCTTGAGAAAAATATTGTGCTAT
GTATATGCACCCTAGATTTGAAGTTTCTTGGATGGTCCAGCTTTCTCAAACAGTGTACTT
CTTTTAATTTAAAATAAAATATATGGCTTGTATCTTT



Protein Sequence (617 aa)

>BART1_0-u53703.057 617 150831_barley_pseudomolecules
MEINSSGEETVIKVRKPYTITKQRERWTEAEHKRFLEALKLYGRAWQRIEEHVGTKTAVQ
IRSHAQKFFTKLEKEAINNGTSPGQAHDIDIPPPRPKRKPNCPYPRKGCLSSETPTREVP
KSSVSLSNSNSQMESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSS
SNHGVSGGIEPTKTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHE
DCLDSSMKHMQLKPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVG
GANGSMDCIHPTLPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSN
MLVSTLLSNPTVHAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAA
TVAAASAWWATQGLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQG
QGQPEAMIVVASSGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRS
SCGSNTPSSSDVEAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVS
EEVVVYQHCRISFLCYS