Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u29974.009

ChromosomeExonStartStopDirection
chr4H1511456072511455912+
chr4H2511457260511457229+
chr4H3511457495511457384+
chr4H4511457741511457592+
chr4H5511458151511458084+
chr4H6511459233511458273+


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
morexEMB8.089849.77952.31041
morexETI3.252142.99060.830997
morexLEA25.098128.972615.2728
morexEPI1.205833.066573.8544
morexROO16.01327.467374.15168
morexROO2000
morexNOD13.790610.309412.2069
morexRAC10.046417.336917.4677
morexINF15.083914.75822.95996
morexINF218.222917.01211.8542
morexCAR516.904912.14545.56207
morexCAR1516.241113.21311.6249
morexLEM43.09648.433321.153
morexLOD14.321624.00725.7564
morexPAL32.702422.829518.3998
morexSEN18.001241.497231.6386



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g15890.2 +3 3e-47 167 90/100 (90%) protein|RNA recognition motif containing protein, expressed
TAIR PP10 AT1G07350 @ ARAPORT
AT1G07350.1 @ TAIR		 +3 1e-34 134 70/101 (69%) Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2257732-2260101 REVERSE LENGTH=382
BRACH PP3 Bradi1g67145.1.p +3 1e-50 176 95/101 (94%) pacid=32805382 transcript=Bradi1g67145.1 locus=Bradi1g67145 ID=Bradi1g67145.1.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 (1484 bp)

>BART1_0-u29974.009 1484 150831_barley_pseudomolecules
CTCCAGAACCTTCCGGCAGGTCCTCTCTATTTATTCACACGAGCGCGCGTGCACCATCCA
ACGGGAAAAGAGAGGCGGTGGTCGCAGGTCGGAACTGACGGAGGCAGAGGCGAAGACGAA
GACAGAGACTCGAGAGGCCTCGCAGCGGCGACGAATCAAAGATGTCGTATTCGAGGTACA
GGAGTCGTTCAAGGAGTGTGGACTCGAGTGATGTTGAGAACCCTGGGAACAATCTCTTTG
TGACTGGTTTATCATCTCGTCTAACTGATCGAGATCTGGAGAAGCATTTCTCTACAGAGG
GAGAGGTGATTGATGCAAGTATTGTACTTGATCCATGGACAAGGGAATCACGGGGATTTG
GATTTGTTACCATGGCCAATCTTAAGGAGGCAGAACGCTGCATCAAATATCTCGACAGTT
CAGTGCTGGAAGGTCGTGTCATTACTGTTGAGAAGGCAAAGAGAAGACGAGGTCGAACCC
CAACACCGGGAAGGTACCTTGGCAGCAAATCATCGCGTCGTAAGAAGGAGGTATTCCCGA
AGCAGGTCACCTGTTAGGAGAGACCGTTACGGCTCACGCTACCCGCCCGAGCTAGAACGT
TCTTATTCTCCTTATCGCAGAGGACGATCATACTCTCGTCATGACAGGCATAGATCATAC
TCCCCCTATGGAAGGAGGCCATCCTACTCCCCCTATGAAAGGAGGCCATCCTACTCTCCC
TATGGCAGAAGGAGATCATACTCTCCTTCCGACAGGTCGGAGTCTCCCTACCACAGGCGT
AGATCCTACTCACCCTACGACAGGCGTCACTCACCCCGCTATGGTCATCGCCACCGTTCA
AGATCCCCATACAGTTACAGAAGGCGGAGGTCATGCTCCCATGACCGTTATGTTTCAGCA
TACTACAGCAGGCGCTATTCTCCAAGGAACAGAAGACGGAGTTACTCTCGCAGCGTATCA
CCACGCAGGAGCTACTCCCGTAGCTGCTCCCTGGCGTCAGAAGAATCAAGGAGCTGTTCT
CCGCAGAAAGGATATGCTGAAAGCAAGGCATCGCGCAGCAGGTCACCTGCGATTGCGAAG
AGGCGTTCTAGAGAAAGCTATGCGCACAGCCGCAGTTCATGCTCGAGGTCCGTCTCCAGG
GAGCGCTCAACCTCATCAAGCACCTGATGGTTTACAAAGTGCCTTGATGACTTTGGATGT
TTGTAAACAATGTGGATGGTATGATCGTGTACCTAGTGAAGCAGCTGTATTTCGTCATCG
TTAACATCTTAAATTGCAGTCTGCTTCCATACTATAGGAGAAAAATGCAGAAAATTTCCT
ACAGATTGCCTATTCCACAAGGATTTTATAGCATACTTCTACAACGGAAAAAACGCAGAA
ATTTTCATAAATATTGGCGAGGTCATTTCTTTGTTTCAGATGACCCAGTGCGGATTTTTC
TATAGGAATTCGATACTGCAATTTTCCTTTGTTTATAAGATCTC



Protein Sequence (131 aa)

>BART1_0-u29974.009 131 150831_barley_pseudomolecules
MSYSRYRSRSRSVDSSDVENPGNNLFVTGLSSRLTDRDLEKHFSTEGEVIDASIVLDPWT
RESRGFGFVTMANLKEAERCIKYLDSSVLEGRVITVEKAKRRRGRTPTPGRYLGSKSSRR
KKEVFPKQVTC