Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u29736.006

ChromosomeExonStartStopDirection
chr4H1483706263483705921+
chr4H2483706465483706392+
chr4H3483706600483706543+
chr4H4483706780483706679+
chr4H5483707346483707226+
chr4H6483712155483711561+


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
morexEMB0.6065220.5779470.856577
morexETI2.225851.464252.49237
morexLEA1.0615400
morexEPI4.721510.8366474.45567
morexROO01.163961.01864
morexROO22.535052.148594.41772
morexNOD2.445651.712157.30134
morexRAC3.407415.360028.60611
morexINF11.115512.222010.487663
morexINF22.843470.3546671.98325
morexCAR51.559913.196311.26266
morexCAR150.3677410.5776790.4941
morexLEM3.0243201.19778
morexLOD2.286726.1992.53807
morexPAL2.887194.174163.88411
morexSEN2.440311.683422.64117



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g27320.3 +2 9e-144 413 258/310 (83%) protein|steroid binding protein, putative, expressed
TAIR PP10 AT5G58220 @ ARAPORT
AT5G58220.3 @ TAIR		 +2 6e-86 265 157/299 (53%) Symbols: TTL | transthyretin-like protein | chr5:23554546-23555861 REVERSE LENGTH=311
BRACH PP3 Bradi1g60700.3.p +2 2e-154 439 263/308 (85%) pacid=32804009 transcript=Bradi1g60700.3 locus=Bradi1g60700 ID=Bradi1g60700.3.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 (1293 bp)

>BART1_0-u29736.006 1293 150831_barley_pseudomolecules
CTTCCGGCAAAAACAGGTGTTGCTCTCGTAGCGCTCGCTCTCACCCACCCTTCCCCAACT
CGCATCCAGCGCCGCAACCCCTCGTCTCTCCCCCCCTTCCGATCTGAGGCGTCGTTGGAG
ATCGGCGGCAACCGAAGAGGCGTCCGACGACGGCCGTCGCGGGTGGCACCAGTGCAGTGG
AGCAAATCAACCAGTTGAGATGGCGACATTGAGGCCGCTGAGCGTGGAGGAGGTGCTGAG
GGTGAACGGCAGCCACCGCTTTGCCGCCGCGCTGGCTGCCGCCTCCCCCTTTGATTCTCT
TGCCAACGCGCTCCTTGCCGCCCGCCGCATCTGGCTGAACGAGGTGGACGTGACTGGATG
GCTGGAGGCCTTCGCTGCCCACCCACCCATCGGAAGCACCTCCTCCTCCGTCTCCAAGTG
GAGCAAGGAAGAGCAATCAGCTGCTCTTTCCACAGCCACTGATTCGACTGCGCAGGAGTT
GTCCGAGTGGAATGCCAAATACAGGGAGAAGTTTGGGTTCGTGTTCATGATATGCGCATC
TGGGAGGACTGCCCCTGAGGTCTTAGCTGAGCTTAAGAGGCGTTATGCAAATAGACCAGT
TGTTGAGCTTGAGGCTGCGGCAGAGGAAGAACTGAAGATAACTGAGCTGCGTCTTGCAAA
GCTTTTCGCATCAGAAACTGCTGCTCCCCCTACTTCAGGCAACTCCAACCGGACACGCCC
TCCTATCACAACCCATGTGCTGGACACGGCTCTTGGATCGCCAGCATCTGGAATTGAAGT
TCACCTGGAGATGTGGAAGGACGCGTCAAGTACCCCGTCATTTGACAACAAAGATTTCAA
GGGATGGACAACCCTAGGCTCTTCGATTACAAACAATGATGGACGCAGCGGTCAGCTGAT
GGACATCGTTGACAATGTCACTCCTGGTTTCTACCGCATAAGTTTCAATACCTCCAAGTA
TGCACCGTCAGGGTTCTTCCCTTACGTGAGCATCATATTTGAGATAAAAAGAAGCCAGGC
GACCGAGCATTTCCATGTGCCTCTTTTACATTCTCCTTTTTCCTTTACCACTTACCGTGG
CAGCTAAGCTGTCAATTTGTGTGTAAATCACATCGAGTGATGGTATTGTTCTGAAACAAG
CATAAATGGTCGTAAATCAGGGTGTTTAGATGTCACTGACATTGTGATATTTGAATAATA
ATGTTCCATGTAATAATAAGCTCGAGTATGCAGTGACATTGGATCAGTTTGTTTTCAATA
CTTTTATCCATTGCTATTTGTGATTGGGTGGCC



Protein Sequence (295 aa)

>BART1_0-u29736.006 295 150831_barley_pseudomolecules
MATLRPLSVEEVLRVNGSHRFAAALAAASPFDSLANALLAARRIWLNEVDVTGWLEAFAA
HPPIGSTSSSVSKWSKEEQSAALSTATDSTAQELSEWNAKYREKFGFVFMICASGRTAPE
VLAELKRRYANRPVVELEAAAEEELKITELRLAKLFASETAAPPTSGNSNRTRPPITTHV
LDTALGSPASGIEVHLEMWKDASSTPSFDNKDFKGWTTLGSSITNNDGRSGQLMDIVDNV
TPGFYRISFNTSKYAPSGFFPYVSIIFEIKRSQATEHFHVPLLHSPFSFTTYRGS