Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.006

ChromosomeExonStartStopDirection
chr2H1752588451752588334+
chr2H2752588933752588832+
chr2H3752589073752589014+
chr2H4752589262752589184+
chr2H5752589517752589367+
chr2H6752589725752589602+
chr2H7752590240752590063+
chr2H8752590438752590410+
chr2H9752590913752590778+
chr2H10752591094752590992+
chr2H11752591357752591262+
chr2H12752591736752591444+
chr2H13752592021752591959+
chr2H14752592164752592108+
chr2H15752592439752592278+
chr2H16752593033752592963+
chr2H17752593214752593121+
chr2H18752593626752593490+
chr2H19752593809752593729+
chr2H20752594122752594017+
chr2H21752594837752594437+


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
morexEMB14.82443.5757210.2259
morexETI1.791841.099091.32041
morexLEA0.0013125506.79828
morexEPI0.3174820.01928180.294546
morexROO1.0410801.77926
morexROO200.1483620.137773
morexNOD2.308160.4459260.76866
morexRAC101.304100.984106.63
morexINF16.3384310.43099.51912
morexINF21.567966.019115.3076
morexCAR5000
morexCAR15000
morexLEM1.580240.829661.43997
morexLOD0.9368173.777010.880349
morexPAL1.650261.443542.90101
morexSEN0.4154620.2218940.268194



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g29220.1 +3 5e-166 492 229/312 (73%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23510 @ ARAPORT
AT3G23510.1 @ TAIR		 +3 1e-134 423 197/309 (64%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8428071-8433159 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +3 3e-157 483 227/324 (70%) pacid=32809829 transcript=Bradi5g02490.1 locus=Bradi5g02490 ID=Bradi5g02490.1.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 (2641 bp)

>BART1_0-u16377.006 2641 150831_barley_pseudomolecules
TTTGAAATGAAGGTACCTGGAGGACCATGAACGTAACCCTGATCTGGATCGTAATGAGAC
ACTGGGGCAGTTCATTCAGTCGCATGGATATTCCCTATCGTTTCAAGAGGCTTATCTTAT
TCCAGTCTGCACAGGCACGTGGTCATGTTCATCACAAGATGTTTTGAGCCTGTCTGCTTT
CTTGGTGCTGTCATTTTGCCGTAACCATGGCCTTCTTCAGCTGTTTCGTCACTCCCAGTT
GCCCACTGTCAAGCCTAGTTCGCAGTCCTATGTAAACAAGGTAAAAGGAGAATTGGAGAG
CATTGGCTGTCGAATTAAAACCAGTTGTCGGGTCAAATCTGTTTCAAGTCTTGATGGAGC
TGGCTACAGAGTCTTGGAGAATGATGGTTCAGTGGAAACATACGACAGTGTCATCTTTGG
GGTCCATGCATCCAATGCTCTCAAATTATTAGGAGCTGAAGCATCACATCACGAACGAAG
AATTCTAGGTGCCTGTCAGTATGTCCAAAGAGATATATACCTCCACTGCGATCAAAATTT
GATGCCCCGAAAATCAGCAGCATGGAGTGCGTGGAATTTCCTTGGGACAACTAGTAGGGG
TTTTTCTATTACTTACTGGCTAAACCAAATTCAGAAATTTGAATCGGGCAGGCCTTTCCT
GGTGACACTCAATCCCCCTTGTGTTCCGGATCATGTACTACTTAAATGGAATACAAGCCT
TCCTGTTCCGTCTGTGGCCGCGGCGAAGGCTTATCTTCAGCTTGATCAGATCCAGGGAAA
GAGGGGAATATGGTTCTGTGGGGCATATCAAGGTCATGGCTTCCATGAAGACGGATTAAA
GCGGCTCAAGGTTTGCTTGGAAAGAAATGTGAGCTTCTGCTGAACCCAAAGAATATGATT
CCATCATGGATTGAGGCTGGGGCACGCCTTCTAGTTGCAAGATTTTTCAACCAATACATA
TCCATTGGTAACTTGATATTGGTCGAAGAAGGAGGTAGTGTGTTCAGCTTTGGTAAAGCT
TGCGACAAATGCCGTGTAAAATCTGTCATCCAAGTTCATGACCCCTTGTTCTATTGGAAG
GTTGCAATAGAAGGAGGCATGGGCTTGGCAGAATCCTATATTGACGGTTGTTTCTCTGTT
CTTGACAAGAGAGAAGGCCTTCTAAATCTTATCCTGATTCTCATTGCTAACAGAGACGAG
CGTAGGAACCGCCGCATTGCCAGAAAAGGGTTCTGAAACCTTCAATTGTCCACTAGATTC
CTATGAATTGTTTGATAAAAATGAAGTAGTACCTATGAGTATGCGTTTGTGATTAATCCT
GTACATGCTGTTTTTCGGTTTGCAGGTTTTGGTTGTCACCCTTCCATGTAATAGCTCAAT
TGGCATATGCTAAACACTTTTTGCGCCAGGCAACAAGGAAGAACACTGCAACACAAACTC
GTCGAAACATCTCTGAGCACTATGATCTTAGTAACGACTTTTTTTCGCTTTTTCTGGATA
AATCGATGACTTACTCCTGTGCAGTTTTCAAGGAGAACGAAAGCTTAGAAGCAGCCCAAC
AACGTAAACTTAGCCTTCTAATCAACAAGGCTAAAGTCAAGAGGGAGCATCATGTTCTTG
ATATCGGTAGCGGCTGGGGAAGTTTAGCAATAGAAACAGTTAAGCAAACTGGCTGCAAAT
ACACTGGAGTCACTTTATCGGCGGAGCAGCATAAATACGCAGAAAGAAAAGTAAGAGAAG
CTGGCTTAGAGGACCGCATAAATTTTCTGCTGTGCGACTACCGTAAAATACCACCTTTTA
AGTATGACGCAATCATAAGCTGTGGTATGATTGAACATGTTGGCCATGAATACATGGACG
AATTTTTTGCTTGCTGTGAGTCTTACTTGGCTGAAGATGGGATATTGGTCCTCCAGTTCA
TCTCAGTTCCAGAGGAACGGTACGAGCAATACAGAAAAAGGCCAGACTTCATAAAAGAGT
ACATATTCCCTGGTGGTTGCCTTCCTTCTTTGGCCCGTATAATGTCTGCCATGACCGCGT
CATCAAGGTTCTGCATAGAGCATGTCGAGAATATTGGGCCCAATTACTACACAACTCTGA
TGCACTGGAGGGACAACTTCATGGCCAACAGAGACCAAGTTTTGGCCCTGGGCTTTGATG
AAAGGTTCCTCCGTATATGGGAGTACTACCTCATATTCTCTGCGGCTGGTTTCAAGTCAC
GAGCAATTGGAGATTACCAGGTTGTTTTCTCTCGTCCAGGCAATCGTCGTCTAGGCCAGC
CTTGATGGCCGGAGACAACATATCCTTCTCCGTTCAGCGGCCGAATGGTTACTTGTCAGT
ACCGTACGAGATTTTAATAAGTCAGTCCTGGAATGATTCGCTCATGCCGGAATCCTACTC
AGGTGGTTTGGTGATCTATCTTGTTGTTTAACCATGCAATGGTTAGTTTTTCGTGGGAGT
GTCTTGTTATCCATCAATTAACTAGAATTTTGAGAATTGTATGTAAGGAACTGGTTTGTT
TGCTTTAATATCTATGAGGAAGAGTTGATGTCCTTGCTTGTAGTTTCTCATGATCTGATC
TATTCGGTGTTTGCCGTTTTCAATGCTTGCTTGCGAAGAGAATCAATATATGTTCCTGAG
T



Protein Sequence (259 aa)

>BART1_0-u16377.006 259 150831_barley_pseudomolecules
MTYSCAVFKENESLEAAQQRKLSLLINKAKVKREHHVLDIGSGWGSLAIETVKQTGCKYT
GVTLSAEQHKYAERKVREAGLEDRINFLLCDYRKIPPFKYDAIISCGMIEHVGHEYMDEF
FACCESYLAEDGILVLQFISVPEERYEQYRKRPDFIKEYIFPGGCLPSLARIMSAMTASS
RFCIEHVENIGPNYYTTLMHWRDNFMANRDQVLALGFDERFLRIWEYYLIFSAAGFKSRA
IGDYQVVFSRPGNRRLGQP