Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53703.098

ChromosomeExonStartStopDirection
chr7H1385863972385861719-
chr7H2385864396385864078-
chr7H3385865991385865930-
chr7H4385866338385866227-
chr7H5385866611385866409-
chr7H6385867084385867000-
chr7H7385867306385867200-
chr7H8385867543385867389-
chr7H9385872195385872147-


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
morexEMB000.0995521
morexETI0.09273560.1585940
morexLEA0.3367310.3341580.122261
morexEPI000
morexROO00.06912670
morexROO20.08017590.09502370
morexNOD0.1710141.015361.11181
morexRAC00.03898720
morexINF10.175390.1460380.0893546
morexINF20.22082300.114843
morexCAR5000.0503728
morexCAR15000
morexLEM0.7813030.6037720.0264262
morexLOD000.172221
morexPAL0.086900100
morexSEN0.1431700



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g06110.2 +1 0.0 549 369/539 (68%) protein|MYB family transcription factor, putative, expressed
TAIR PP10 AT1G01060 @ ARAPORT
AT1G01060.4 @ TAIR		 +3 1e-32 135 60/72 (83%) Symbols: LHY, LHY1 | Homeodomain-like superfamily protein | chr1:33992-37061 REVERSE LENGTH=644
BRACH PP3 Bradi3g16515.1.p +1 0.0 597 393/532 (74%) 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 (3346 bp)

>BART1_0-u53703.098 3346 150831_barley_pseudomolecules
GGGCGGGCGACGTGGCCACCGGGGTCAGCTTGCTTGCTGCTCGCCCGAGTAACTTTCAGG
TGTAGGAAGTGTTAAGGGGATACATAATCGGTTTTGAGCTGCGAGGCCCTGCATTTCTTC
TGCCTGCTGTTTGATTCACGGCCCACTCTTTTCCTTCTATCCATTCAAGCAAAGTACTGG
AATTTCTGAGCCCAATTTATTCAGTTTTCATTATGAGCTGTGATTCAAAGCTGGAGGTTG
ATAGGACCTCAGCACTAATAACGTGGATTTTGTTGCTCTGGCAGGTCATGGGATTTGTTT
GTCCTTAGCAGAGTTGAAGATAAAGAGAGGAAGGCTAAACTCTGCTGATCCGGTTCATGC
GAGCAATGAGCCAACTGCAGTAGAGGTTTACAGTAGAGAGGTTTAGGGGGAGGTATGAGA
TACTACTCGCGTCAGGTCCAGCGTTTGGCTGGAGACACAGAAGGAGGAGTGCTGTTGTTT
GTAGACGCCCTCAACTCCAAGTAACAAAGCGACCAGTTGTCAGCACTTCCTTTTGTTTTC
GCATTTCCCTGGAATTGGAGATGGAGATAAATTCTTCGGGTGAGGAAACGGTGATAAAGG
TGCGAAAGCCGTACACAATAACAAAACAGCGGGAGCGGTGGACTGAGGCAGAGCACAAAC
GGTTCCTTGAAGCCCTCAAACTGTATGGCAGAGCTTGGCAGCGCATAGAAGAGCATGTTG
GGACAAAGACGGCCGTGCAAATCAGAAGCCATGCTCAGAAGTTCTTCACAAAGATTTCAA
ATTGAAGATATAAATTACAGACCTATGCAACAATAGATAGTTCAATTTTCCAATTCTAGT
TTATCACCACTGTCTGTCTGTATCTAACTATTTGGGAAATTGCAGTTGGAAAAGGAAGCT
ATCAACAATGGTACTTCTCCAGGACAAGCTCATGATATAGACATACCTCCACCACGGCCT
AAAAGAAAACCTAACTGTCCATATCCTCGAAAAGGTTGTCTCAGCTCTGAGACACCCACC
AGAGAAGTTCCAAAATCAAGTGTTAGCTTGAGCAATAGCAATTCACAAATGGAAAGCAAT
GGAACTCTTCAGGTCACCAGCACTCAGAAACTTCAAAGGAAGGAGTTGTCTGGAAACGGC
AGTTGCTCAGAAGTTATTAATATCTTTAGAGAAGCACCATCTGCCTCATTTTCTTCCTCT
AACAAGAGCTCTTCAAATCATGGTGTCTCTGGGGGAATTGAACCGACTAAAACAGAAATC
AAAGATATGGCAGCCATGGAAAGGAAATCTACTTCCGTTGATGTGGCGAAGGATGTAAAA
GATATTAATGACCAGGAAATGGAAAGGAACAACAGAGTCCACATCAGTTCTAAATATGAC
CGTTCTCATGAAGATTGTTTGGATAGCTCAATGAAACACATGCAGTTGAAGCCAAATACT
GTGGAGACAACATACACGGGTCAACATGTTGCAAGTGCTCCACTCTACCAAATGAATAAG
ACTGGGGCAACTGGCACTCCAGACCCTGGAACTGAAGGAAGTCATCCTGATCAAACGAAT
GATCAAGTGGGAGGAGCTAATGGAAGTATGGACTGCATCCATCCAACACTTCCCGTGGAT
CTAAAATTTGGCAGCAGCTCCACAGCGCAGCCCTTTCCCCACAACTATTCAGGCTTTGCA
CCAACGATGCAATGCCAGTGCAACCAAGATGCCTACAGGTCATCTGTTGATATGTCGTCC
ACCTTCTCCAACATGCTCGTTTCCACATTGTTATCAAACCCCACAGTACATGCAGCTGCA
AGGCTTGCAGCATCATACTGGCCAGCAGCAGACAGCAACATCCCTGTCGATCCAAATCAA
GGAATTTTTGCTCAGAATGCTCAAGGAAGACATATTGTTTCTCCTCCAAGCATGGCTTCT
GTGGTAGCAGCTACAGTTGCTGCGGCTTCGGCATGGTGGGCAACACAAGGTCTTCTCCCT
CTTTTTGCTCCCCCCATGGCTTTTCCATTTGTCCCAGTTCCTACCGCTTCCTTTCCCACA
GCGGATGTCCAGCGAGCTACAGAGAACTGCCCAGTGGACAACGCACCAAAGGAATGCCAA
GTAGCTCAGGGGCAAGGTCAACCTGAAGCTATGATAGTTGTAGCATCTTCTGGGTCCGGC
GAGAGTGGAAAAGGAGAGGTGTGTCCTCACACTGAGTTAAATATATCTCTGGCTGATAAA
GCTGAGACAACACCTGCCACAGGAGCTGAAACAAGTGATGCTTTGGGCAACAAGAAGAAG
CAGGATCGCTCTTCATGTGGTTCCAACACACCATCAAGTAGTGATGTAGAGGCAGAACAT
GTTCCTGAGAACCAAGATCAAGCTAACGACAAGACACAGCAAGCATGTTGCAGTAATTCT
TCAGCTGGTGACATGAACCATCGCAGGTTTAGGAACATTTCAAGCACGAATGATTCATGG
AAGGAAGTTTCCGAGGAGGTTGTAGTCTACCAGCATTGCCGAATTTCATTTCTATGTTAC
TCTTGAGCATCTATCACTGCTTTTCTAATTCACATTTCTGCTGTCAGGGTCGTATGGCTT
TCGATAAACTGTTCAGTAGAGGAAAGCTTCCCCAAAGCTTTTCTCCTCCACAAGCAGAAG
GATTGAAGGTGGTTCCCAGAGGGGAGCAAGATGAAGCTACTACGGTGACGGTCGACCTCA
ACAAGAGTGCTGCAGTTATGGACCATGAACTTGACACATTGGTTGGGCCAAGAGCTTCCT
TTCCCATTGAATTGTCACACCTGAATATGAAATCCCGCCGGACAGGCTTCAAACCTTACA
AGAGGTGCTCGGTGGAAGCAAAGGAGAATAGGGTGCCGGCTGCTGACGAGGTTGGTACCA
AAAGGATTCGCCTTGACAGCGAACCCTCCACGTGATTTACTTCCCACGACATGATTACCA
GCCTGCACAAGTAGTGTATTTTCAAGAAATTGCGGTATTTACATCTAAGCTACTATAGGA
CTTGCCAGTCCTTGCAATGCAGTGTTTCACAGAACTCAATTTGTTATGTGTTGTATGTTA
ATGCTTGCCGAGCAGCCCTTTTAGACTGTCAATTAAGCATTAAGCACCTATGCATGCTAC
TTTATTGGTAAAAAAGTAATTCTGCTTATTTTTCTGTGATGAAGGATAATACTTGTAATT
TTGCTTCATTTTACTGGATCATGTAGATTTAATTCCCGAAGGGAGAGCATGATCGCCTTG
TGTTATTTTTATTTTCTTGAGAAAAATATTGTGCTATGTATATGCACCCTAGATTTGAAG
TTTCTTGGATGGTCCAGCTTTCTCAAACAGTGTACTTCTTTTAATT



Protein Sequence (485 aa)

>BART1_0-u53703.098 485 150831_barley_pseudomolecules
MESNGTLQVTSTQKLQRKELSGNGSCSEVINIFREAPSASFSSSNKSSSNHGVSGGIEPT
KTEIKDMAAMERKSTSVDVAKDVKDINDQEMERNNRVHISSKYDRSHEDCLDSSMKHMQL
KPNTVETTYTGQHVASAPLYQMNKTGATGTPDPGTEGSHPDQTNDQVGGANGSMDCIHPT
LPVDLKFGSSSTAQPFPHNYSGFAPTMQCQCNQDAYRSSVDMSSTFSNMLVSTLLSNPTV
HAAARLAASYWPAADSNIPVDPNQGIFAQNAQGRHIVSPPSMASVVAATVAAASAWWATQ
GLLPLFAPPMAFPFVPVPTASFPTADVQRATENCPVDNAPKECQVAQGQGQPEAMIVVAS
SGSGESGKGEVCPHTELNISLADKAETTPATGAETSDALGNKKKQDRSSCGSNTPSSSDV
EAEHVPENQDQANDKTQQACCSNSSAGDMNHRRFRNISSTNDSWKEVSEEVVVYQHCRIS
FLCYS