Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u53291.014

ChromosomeExonStartStopDirection
chr7H1367195109367194882+
chr7H2367196042367195969+
chr7H3367196298367196124+
chr7H4367196746367196670+
chr7H5367196913367196832+
chr7H6367197114367197019+
chr7H7367197968367197196+


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
morexEMB2.097698.718515.65307
morexETI0.4008221.890140.643279
morexLEA10.15678.730365.79218
morexEPI000
morexROO2.217872.242850.92327
morexROO20.6876860.1557110.000000000893271
morexNOD3.60380.7985761.08537
morexRAC0.2268310.3688191.23832
morexINF16.887077.800643.9153
morexINF29.49527.350117.51218
morexCAR503.662875.51615
morexCAR151.171791.622961.34474
morexLEM2.522520.7828190
morexLOD0.2371190.2095890.307871
morexPAL0.4506031.475620.858634
morexSEN0.9199750.000000007236580.742669



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g12760.2 +3 1e-148 438 247/419 (59%) protein|YT521-B, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi3g18190.1.p +3 1e-180 520 281/436 (64%) pacid=32821513 transcript=Bradi3g18190.1 locus=Bradi3g18190 ID=Bradi3g18190.1.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 (1505 bp)

>BART1_0-u53291.014 1505 150831_barley_pseudomolecules
TGATTAGCGTGGCCGGACCTCTTCCTCTTCGTCTCGCATACTCACCAGCGTCAAACCCGA
CGGTGGAAGGAAGCCCCTCCTCGCCGACCATCGACGGCCTCCGTGTCTCCTCCAGCCGGA
GAACGTAGCTACGCTAGCCCCTCTTTCCTCTCCTGTTTCGTCCCCCTCCTCCTCGTCCCA
TCTGCTGGAACATGGCGTTGAGCGGAGGAGATTCGTCCGGATTCGTCGATTGCACAATTC
TGCTGCAATCAGAAATTGTAGTTGATAATAACCCCTCCAAGAGTACAAATACCAAAGAGC
AGATTATTTCTATTACGGCTGAGAAAACAAGTGCTTCTGATGCGCGGGGCTCTACCTCCT
TAAAGTCACCAAAAGGTGCACAAGAGAAGGCTAATTTTTTGGGAAAAGGTGGAGAACAGC
CTTATGTCTACCAGCCCAATGTGTATGCTCCACAGCCACAGACAGTCTATTCTGGAGGAT
ATATCAACCCTTCAGGGCAATGGGAAGAGTATCCCTATTATGTGAGTATGGAAGGAGTCC
ATTCTGCGTCACCTTCAATCATGCTATCTCCTGGGTATGCGAACAACCCCCAAATGATGT
ATGGAGCTTATTCTCCTGTTTCAACTGTTGGAGAGGGAGACCCTATGCTTCAGCAAGAGT
ACTTCCTTCCTGATGGTCTTCTCTATTCACCCACAGCAGTGTACCGCCAACCATTTGGGT
CATACAACAGAGATTGGTCAGAGCCATGCCAAACTAATTGTGAGTTTCTTCCGCAGCGGC
AACACAACCAAGCAATGCTTCGGGACTATTTGGGCAAGGGAATGCACCATTGGCTTTTGG
AATGGTATGTTGTCATGCAATTTGGACTGTTTGCACAAGCTCCCCTGGACACGTTCAGTT
CAGTAAAAATGGAGCACTTATTATTGGACCTCAAGTTTGGTTATTTGTTAAGCTTACTGC
GCCCTGAAATGTCCAGTACTGAGTATGCATGTTATTTGCAGCAGCATGGAACAATGTATA
ATTCTGGATCCTACAAGGCACACCAACAAGCTAGTAAATATGGAGGCACTACTCCTAATT
GGGGTTCTGCCGGTCGTAGATTTAATAATTTTGACTGCAACTCCAGTCAACAAAGGGGGA
GCATGCCATTCAATATCCAGAATGGTGCTCTGGAGTTTCTGAACGAGCAAAACCGCGGCC
CACGTGCTGCAAAACCAAAGAAACAAGACAGAGACAATTCTTTAGTAGATGACAAAAGCG
AGAAAACCACTCTGCTTATTGACAGTGAACTGTACAATCGTCCTGATTTTGCCACGGAGT
ACAAGGATGCGATTTTTTTTGTAATTAAATCATACACAGAGGACCATGTACATAGGAGCA
TTAAGTACAATGTCTGGGCCAGCACAGCTAGTGGGAATAGAAAGCTGGATTCAGCTTATC
GTGCGGCCAAACAGAAAGAAGACCATTCCCGTGTTTTCTTGTTCTTCTCGGTAAGACTAG
CCCCT



Protein Sequence (438 aa)

>BART1_0-u53291.014 438 150831_barley_pseudomolecules
MALSGGDSSGFVDCTILLQSEIVVDNNPSKSTNTKEQIISITAEKTSASDARGSTSLKSP
KGAQEKANFLGKGGEQPYVYQPNVYAPQPQTVYSGGYINPSGQWEEYPYYVSMEGVHSAS
PSIMLSPGYANNPQMMYGAYSPVSTVGEGDPMLQQEYFLPDGLLYSPTAVYRQPFGSYNR
DWSEPCQTNCEFLPQRQHNQAMLRDYLGKGMHHWLLEWYVVMQFGLFAQAPLDTFSSVKM
EHLLLDLKFGYLLSLLRPEMSSTEYACYLQQHGTMYNSGSYKAHQQASKYGGTTPNWGSA
GRRFNNFDCNSSQQRGSMPFNIQNGALEFLNEQNRGPRAAKPKKQDRDNSLVDDKSEKTT
LLIDSELYNRPDFATEYKDAIFFVIKSYTEDHVHRSIKYNVWASTASGNRKLDSAYRAAK
QKEDHSRVFLFFSVRLAP