Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.008

ChromosomeExonStartStopDirection
chr2H1752589262752589180+
chr2H2752589517752589367+
chr2H3752590240752589602+
chr2H4752590438752590410+
chr2H5752591357752590992+
chr2H6752591736752591444+
chr2H7752592021752591959+
chr2H8752592164752592108+
chr2H9752592439752592278+
chr2H10752593033752592963+
chr2H11752593214752593121+
chr2H12752593626752593490+
chr2H13752593809752593729+
chr2H14752594122752594017+
chr2H15752595150752594437+


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
morexEMB00.2131980
morexETI00.1932510
morexLEA000
morexEPI0.14995900
morexROO000
morexROO20.33688400
morexNOD000
morexRAC0.1689230.1211380
morexINF1000
morexINF2000
morexCAR5000
morexCAR15000
morexLEM000
morexLOD0.19006100
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g29220.1 +2 2e-164 492 229/312 (73%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23510 @ ARAPORT
AT3G23510.1 @ TAIR		 +2 3e-133 423 197/309 (64%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8428071-8433159 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +2 1e-155 483 227/324 (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 (3046 bp)

>BART1_0-u16377.008 3046 150831_barley_pseudomolecules
GCAGGTAAAAGGAGAATTGGAGAGCATTGGCTGTCGAATTAAAACCAGTTGTCGGGTCAA
ATCTGTTTCAAGTCTTGATGGAGCTGGCTACAGAGTCTTGGAGAATGATGGTTCAGTGGA
AACATACGACAGTGTCATCTTTGGGGTCCATGCATCCAATGCTCTCAAATTATTAGGAGC
TGAAGCATCACATCACGAACGAAGAATTCTAGGTGCCTGTCAGTATGTCCAAAGAGATAT
ATACCTCCACTGCGATCAAAATTTGATGCCCCGAAAATCAGCAGCATGGAGTGCGTGGAA
TTTCCTTGGGACAACTAGTAGGGGTTTTTCTATTACTTACTGGCTAAACCAAATTCAGGT
AAATTCTCTACTTTTCGTATGTATAGTTTGGTATAATGAATTAGTTTTACTGATGACATA
TTTTTTTGACGAAACAACCCTTCCCTGGCTTTACTACAATGCTGAAACCATTTTGTGCGT
GTTACATGTACTCAGGACTAGGCATGCCTCCTCGGCCAAAAGGAAGAAACCAAATGAAGA
AAAAAATATTTTCATCATGTTAGAACTCAGAACACCCTGTAGAGTAGGTTCACACAATAA
CATCAAGACGGAAGCTTCAGCCTAACCCCTCCAGCAGCATGAATGTATTACTTCATTATT
AACTGTGGCATATTTGTTCTTTTTTGCTCTTCTAGAAATTTGAATCGGGCAGGCCTTTCC
TGGTGACACTCAATCCCCCTTGTGTTCCGGATCATGTACTACTTAAATGGAATACAAGCC
TTCCTGTTCCGTCTGTGGCCGCGGCGAAGGCTTATCTTCAGCTTGATCAGATCCAGGGAA
AGAGGGGAATATGGTTCTGTGGGGCATATCAAGGTCATGGCTTCCATGAAGACGGATTAA
AGATTGGTCGAAGAAGGAGGTAGTGTGTTCAGCTTTGGTAAAGCTTGCGACAAATGCCGT
GTAAAATCTGTCATCCAAGTTCATGACCCCTTGTTCTATTGGAAGGTTATCTTCTCTTTT
CTTATTCTGACTACACATGCATTTAAAAAAATTAAGAGTGGTGATGTGCCCATGCATGAT
TCATAATTTCCTATATACTCCACTGCATTTGCTTTGTACAACTTTTTCATTCGAACCACA
TGTGTGTACCCTGGCTCTCTCATGGCTTTCAGGTTGCAATAGAAGGAGGCATGGGCTTGG
CAGAATCCTATATTGACGGTTGTTTCTCTGTTCTTGACAAGAGAGAAGGCCTTCTAAATC
TTATCCTGATTCTCATTGCTAACAGAGACGAGCGTAGGAACCGCCGCATTGCCAGAAAAG
GGTTCTGAAACCTTCAATTGTCCACTAGATTCCTATGAATTGTTTGATAAAAATGAAGTA
GTACCTATGAGTATGCGTTTGTGATTAATCCTGTACATGCTGTTTTTCGGTTTGCAGGTT
TTGGTTGTCACCCTTCCATGTAATAGCTCAATTGGCATATGCTAAACACTTTTTGCGCCA
GGCAACAAGGAAGAACACTGCAACACAAACTCGTCGAAACATCTCTGAGCACTATGATCT
TAGTAACGACTTTTTTTCGCTTTTTCTGGATAAATCGATGACTTACTCCTGTGCAGTTTT
CAAGGAGAACGAAAGCTTAGAAGCAGCCCAACAACGTAAACTTAGCCTTCTAATCAACAA
GGCTAAAGTCAAGAGGGAGCATCATGTTCTTGATATCGGTAGCGGCTGGGGAAGTTTAGC
AATAGAAACAGTTAAGCAAACTGGCTGCAAATACACTGGAGTCACTTTATCGGCGGAGCA
GCATAAATACGCAGAAAGAAAAGTAAGAGAAGCTGGCTTAGAGGACCGCATAAATTTTCT
GCTGTGCGACTACCGTAAAATACCACCTTTTAAGTATGACGCAATCATAAGCTGTGGTAT
GATTGAACATGTTGGCCATGAATACATGGACGAATTTTTTGCTTGCTGTGAGTCTTACTT
GGCTGAAGATGGGATATTGGTCCTCCAGTTCATCTCAGTTCCAGAGGAACGGTACGAGCA
ATACAGAAAAAGGCCAGACTTCATAAAAGAGTACATATTCCCTGGTGGTTGCCTTCCTTC
TTTGGCCCGTATAATGTCTGCCATGACCGCGTCATCAAGGTTCTGCATAGAGCATGTCGA
GAATATTGGGCCCAATTACTACACAACTCTGATGCACTGGAGGGACAACTTCATGGCCAA
CAGAGACCAAGTTTTGGCCCTGGGCTTTGATGAAAGGTTCCTCCGTATATGGGAGTACTA
CCTCATATTCTCTGCGGCTGGTTTCAAGTCACGAGCAATTGGAGATTACCAGGTTGTTTT
CTCTCGTCCAGGCAATCGTCGTCTAGGCCAGCCTTGATGGCCGGAGACAACATATCCTTC
TCCGTTCAGCGGCCGAATGGTTACTTGTCAGTACCGTACGAGATTTTAATAAGTCAGTCC
TGGAATGATTCGCTCATGCCGGAATCCTACTCAGGTGGTTTGGTGATCTATCTTGTTGTT
TAACCATGCAATGGTTAGTTTTTCGTGGGAGTGTCTTGTTATCCATCAATTAACTAGAAT
TTTGAGAATTGTATGTAAGGAACTGGTTTGTTTGCTTTAATATCTATGAGGAAGAGTTGA
TGTCCTTGCTTGTAGTTTCTCATGATCTGATCTATTCGGTGTTTGCCGTTTTCAATGCTT
GCTTGCGAAGAGAATCAATATATGTTCCTGAGTATCATGTTTCACCAATGACTGAGGAGG
ACTTTTGCTAACAGAAAAGATGAGATCTCTTTGGCTAGTTTTTGTTAAAGGGGATGGCAG
CAGTAAATACCTTCGTCCTTCCTCCATGTTGGAATCAAGAAGTTAGTGTGCAGTGACGAG
TGTGGACTCAAGTGTTGCAACACGTACGTACGCATGCACCTAAGTTGCAAGCTACGCAAA
GCTAACTACTGTACGTACTACAGTACAAGCTGCAGGTTGTAAAGTGGTCTGTATATCGTG
TGATCGTAATTGCCGGTTGGTAAAGCTAGCACAGTGACATTTCTTC



Protein Sequence (259 aa)

>BART1_0-u16377.008 259 150831_barley_pseudomolecules
MTYSCAVFKENESLEAAQQRKLSLLINKAKVKREHHVLDIGSGWGSLAIETVKQTGCKYT
GVTLSAEQHKYAERKVREAGLEDRINFLLCDYRKIPPFKYDAIISCGMIEHVGHEYMDEF
FACCESYLAEDGILVLQFISVPEERYEQYRKRPDFIKEYIFPGGCLPSLARIMSAMTASS
RFCIEHVENIGPNYYTTLMHWRDNFMANRDQVLALGFDERFLRIWEYYLIFSAAGFKSRA
IGDYQVVFSRPGNRRLGQP