Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u56729.003

ChromosomeExonStartStopDirection
chr7H1640933301640932702-
chr7H2640934346640933717-
chr7H3640934528640934439-
chr7H4640935011640934818-


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
morexEMB4.2437700
morexETI00.3457030
morexLEA000
morexEPI000
morexROO1.7280700.228627
morexROO2000.000000817512
morexNOD0.6469935.86310.1075
morexRAC1.5417500
morexINF10.3219110.417210
morexINF20.6144560.3540230.5835
morexCAR50.22587500
morexCAR1500.2546610
morexLEM000.161251
morexLOD00.5027970
morexPAL0.32894100
morexSEN0.67932200.29555



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os01g44230.1 +3 2e-160 470 247/377 (66%) protein|transcription factor X1, putative, expressed
TAIR PP10 AT4G00380 @ ARAPORT
AT4G00380.1 @ TAIR		 +3 1e-75 250 153/377 (41%) Symbols: | XH/XS domain-containing protein | chr4:167959-170448 FORWARD LENGTH=635
BRACH PP3 Bradi2g44460.3.p +3 0.0 525 275/378 (73%) pacid=32779768 transcript=Bradi2g44460.3 locus=Bradi2g44460 ID=Bradi2g44460.3.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 (1514 bp)

>BART1_0-u56729.003 1514 150831_barley_pseudomolecules
TGTTACTACTAGAAATTCGGAAGATGCAGCAGCTAGCTCGCAGACATTCTGAAAGAATTA
TTGATGAGAACCAAAATCTGCGTTCGGAACTGGAGTCCAAGATGAGTGAACTTAATGAAA
GATCCAAAGAGCTTGATGACCTTTCTGCAAAAAGTTCTCATGACAGAAGTAATCTTGAGC
AGGAGAAGCAGAAGAATGCTATTAAATCAAACCATCTTAAGTTGGCAACAGTGGAACAAC
AGAGAGCTAATGAGGATGTGGTGAAGCTTGTGAGAGATCAGAAGAGAGAGAAAGTTGCTG
CATTAAACAAGATCCTGGAGTTAGAACAGCAGTTGGAGGCAAAACAGACGCTTGAACTGG
AAATACAGCAGCTGAAGGGCAAATTGGAAGTGATGAAGCATATGCCAGGTCATGAAGATT
CAGAGGCGAAGGATAAAATCAATCAACTTAGTGAGGAGCTGCAAGATAAGATGGATGAAC
TGGATGCTATGGAGTCACTTAACCAAACTCTGGTTATTAAAGAAAGCAAAAGCAATACTG
AGATGCAAGAAGCTCGGAAGGAGCTGGAAAATGTATATTCATTTTAATTCATTCAAACTG
CGATGCGTATAGTGCTCTATGTTGCTTCAGCGACGTGATCTATCTACCTACTTAATTCTT
CAGATCTTGTTTAATCTTCTCATCTACTGCATGTTCCACAGGGCTTGCTTAATCTTCCAG
GCGGCGGAGCACATATAGGAATTAAGAGAATGGGCGAGCTTGATCTGAAAGCATTTTCAA
ATGCTCTCGGACAGAAGTTGTCGAAAGAGGAAGCAGAAGTTACTGCTGCCATTCTTTGTT
CAAAGTGGGAAGCTGAAATTAGGAATCCAGAATGGCACCCTTTTAGGACTGTCATGGTTG
ACGGAAAGGAAGTGAAAATCGATGCTGATGACACTAAGCTTCAAGAATTAAAAGATGAGC
ATGGCCAAGAAATCTATTCGTTGGTGACCAAGGCGCTGCGTGAGTACAACGCCAATAGCA
CCAGGTATCCCGTAGGAGAGCTGTGGAACTTCAGAGAAGAACGGAAGGCGTCTCTCAAGG
AAGCCGTTCAGGTGGTCCTGAGGCAGTGGCGAACCACCAGGAGGAAGCGTTGATTGAGCC
CAACCAATGTCGATTCTTTCCTCCTCGTATGGACATCGACATTAGCGGTGTGGTTTGATA
AAATCTCTAGTGGCTATGTACGCCCATGTTGGATATAAGTTGAATAATAAATAATCCTGT
TGTTTCAGTAGTAGTAGCATTAGTGAAGTATCTATCCATCTGTGTAAACAAGCTTGAATA
AAGACTTGGAGTAGTATCAGCACCTGCAAGCACGCTATCAACCCGATCATCGGTGTCTGT
TGGTAAGCGCCGCTGTATGCTTTGTTTCTGAGTTGCTGATAGTAATTCAGAGGAGTGTTT
GTTTGTTGCCTGAATTAATGGTGACCTCCTGTACCAAGTATAGATACAGGAATGCATGAA
TTAGCACATCCACC



Protein Sequence (194 aa)

>BART1_0-u56729.003 194 150831_barley_pseudomolecules
LLLEIRKMQQLARRHSERIIDENQNLRSELESKMSELNERSKELDDLSAKSSHDRSNLEQ
EKQKNAIKSNHLKLATVEQQRANEDVVKLVRDQKREKVAALNKILELEQQLEAKQTLELE
IQQLKGKLEVMKHMPGHEDSEAKDKINQLSEELQDKMDELDAMESLNQTLVIKESKSNTE
MQEARKELENVYSF