Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u29736.005

ChromosomeExonStartStopDirection
chr4H1483706267483705915+
chr4H2483706465483706392+
chr4H3483706600483706543+
chr4H4483706780483706679+
chr4H5483707382483707226+
chr4H6483712160483711561+


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
morexEMB11.834218.26678.10782
morexETI27.317617.735432.3683
morexLEA8.475194.427934.80803
morexEPI21.839428.362124.3521
morexROO5.558364.355134.55036
morexROO233.4935.13732.474
morexNOD6.7870649.963724.2519
morexRAC53.739257.635253.9468
morexINF112.350423.669425.8889
morexINF240.025739.121325.7499
morexCAR515.946321.702923.4747
morexCAR152.958274.925641.3085
morexLEM34.517627.245130.7818
morexLOD49.116758.028337.46
morexPAL44.80643.032244.3618
morexSEN18.405520.760424.031



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g27320.3 +3 5e-136 394 223/261 (85%) protein|steroid binding protein, putative, expressed
TAIR PP10 AT5G58220 @ ARAPORT
AT5G58220.3 @ TAIR		 +3 6e-81 253 147/272 (54%) Symbols: TTL | transthyretin-like protein | chr5:23554546-23555861 REVERSE LENGTH=311
BRACH PP3 Bradi1g60700.3.p +3 9e-144 413 232/260 (89%) 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 (1344 bp)

>BART1_0-u29736.005 1344 150831_barley_pseudomolecules
CTTACCCTTCCGGCAAAAACAGGTGTTGCTCTCGTAGCGCTCGCTCTCACCCACCCTTCC
CCAACTCGCATCCAGCGCCGCAACCCCTCGTCTCTCCCCCCCTTCCGATCTGAGGCGTCG
TTGGAGATCGGCGGCAACCGAAGAGGCGTCCGACGACGGCCGTCGCGGGTGGCACCAGTG
CAGTGGAGCAAATCAACCAGTTGAGATGGCGACATTGAGGCCGCTGAGCGTGGAGGAGGT
GCTGAGGGTGAACGGCAGCCACCGCTTTGCCGCCGCGCTGGCTGCCGCCTCCCCCTTTGA
TTCTCTTGCCAACGCGCTCCTTGCCGCCCGCCGCATCTGGCTGAACGAGGTAGGTGGACG
TGACTGGATGGCTGGAGGCCTTCGCTGCCCACCCACCCATCGGAAGCACCTCCTCCTCCG
TCTCCAAGTGGAGCAAGGAAGAGCAATCAGCTGCTCTTTCCACAGCCACTGATTCGACTG
CGCAGGAGTTGTCCGAGTGGAATGCCAAATACAGGGAGAAGTTTGGGTTCGTGTTCATGA
TATGCGCATCTGGGAGGACTGCCCCTGAGGTCTTAGCTGAGCTTAAGAGGCGTTATGCAA
ATAGACCAGTTGTTGAGCTTGAGGCTGCGGCAGAGGAAGAACTGAAGATAACTGAGCTGC
GTCTTGCAAAGCTTTTCGCATCAGAAACTGCTGCTCCCCCTACTTCAGGTGAAAATCAGA
TTAGCCAACCGGATAAAGCAGCAGGCAACTCCAACCGGACACGCCCTCCTATCACAACCC
ATGTGCTGGACACGGCTCTTGGATCGCCAGCATCTGGAATTGAAGTTCACCTGGAGATGT
GGAAGGACGCGTCAAGTACCCCGTCATTTGACAACAAAGATTTCAAGGGATGGACAACCC
TAGGCTCTTCGATTACAAACAATGATGGACGCAGCGGTCAGCTGATGGACATCGTTGACA
ATGTCACTCCTGGTTTCTACCGCATAAGTTTCAATACCTCCAAGTATGCACCGTCAGGGT
TCTTCCCTTACGTGAGCATCATATTTGAGATAAAAAGAAGCCAGGCGACCGAGCATTTCC
ATGTGCCTCTTTTACATTCTCCTTTTTCCTTTACCACTTACCGTGGCAGCTAAGCTGTCA
ATTTGTGTGTAAATCACATCGAGTGATGGTATTGTTCTGAAACAAGCATAAATGGTCGTA
AATCAGGGTGTTTAGATGTCACTGACATTGTGATATTTGAATAATAATGTTCCATGTAAT
AATAAGCTCGAGTATGCAGTGACATTGGATCAGTTTGTTTTCAATACTTTTATCCATTGC
TATTTGTGATTGGGTGGCCTTGAG



Protein Sequence (198 aa)

>BART1_0-u29736.005 198 150831_barley_pseudomolecules
MICASGRTAPEVLAELKRRYANRPVVELEAAAEEELKITELRLAKLFASETAAPPTSGEN
QISQPDKAAGNSNRTRPPITTHVLDTALGSPASGIEVHLEMWKDASSTPSFDNKDFKGWT
TLGSSITNNDGRSGQLMDIVDNVTPGFYRISFNTSKYAPSGFFPYVSIIFEIKRSQATEH
FHVPLLHSPFSFTTYRGS