Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.007

ChromosomeExonStartStopDirection
chr2H1752588933752588828+
chr2H2752589073752589014+
chr2H3752589262752589184+
chr2H4752589517752589364+
chr2H5752590240752589602+
chr2H6752590438752590410+
chr2H7752590913752590778+
chr2H8752591357752590992+
chr2H9752591736752591444+
chr2H10752592021752591959+
chr2H11752592164752592108+
chr2H12752592439752592278+
chr2H13752593033752592963+
chr2H14752593214752593121+
chr2H15752593626752593490+
chr2H16752593809752593729+
chr2H17752594122752594017+
chr2H18752595151752594437+


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
morexEMB000
morexETI000
morexLEA000
morexEPI000
morexROO000
morexROO2000
morexNOD000
morexRAC000.19568
morexINF1000
morexINF20.28515200
morexCAR5000
morexCAR15000
morexLEM000
morexLOD000
morexPAL000
morexSEN000



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g29220.1 +3 3e-163 492 229/312 (73%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23510 @ ARAPORT
AT3G23510.1 @ TAIR		 +3 3e-132 423 197/309 (64%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8428071-8433159 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +3 1e-154 483 227/324 (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 (3348 bp)

>BART1_0-u16377.007 3348 150831_barley_pseudomolecules
GCAGATTCCAGTCTGCACAGGCACGTGGTCATGTTCATCACAAGATGTTTTGAGCCTGTC
TGCTTTCTTGGTGCTGTCATTTTGCCGTAACCATGGCCTTCTTCAGCTGTTTCGTCACTC
CCAGTTGCCCACTGTCAAGCCTAGTTCGCAGTCCTATGTAAACAAGGTAAAAGGAGAATT
GGAGAGCATTGGCTGTCGAATTAAAACCAGTTGTCGGGTCAAATCTGTTTCAAGTCTTGA
TGGAGCAGCTGGCTACAGAGTCTTGGAGAATGATGGTTCAGTGGAAACATACGACAGTGT
CATCTTTGGGGTCCATGCATCCAATGCTCTCAAATTATTAGGAGCTGAAGCATCACATCA
CGAACGAAGAATTCTAGGTGCCTGTCAGTATGTCCAAAGAGATATATACCTCCACTGCGA
TCAAAATTTGATGCCCCGAAAATCAGCAGCATGGAGTGCGTGGAATTTCCTTGGGACAAC
TAGTAGGGGTTTTTCTATTACTTACTGGCTAAACCAAATTCAGGTAAATTCTCTACTTTT
CGTATGTATAGTTTGGTATAATGAATTAGTTTTACTGATGACATATTTTTTTGACGAAAC
AACCCTTCCCTGGCTTTACTACAATGCTGAAACCATTTTGTGCGTGTTACATGTACTCAG
GACTAGGCATGCCTCCTCGGCCAAAAGGAAGAAACCAAATGAAGAAAAAAATATTTTCAT
CATGTTAGAACTCAGAACACCCTGTAGAGTAGGTTCACACAATAACATCAAGACGGAAGC
TTCAGCCTAACCCCTCCAGCAGCATGAATGTATTACTTCATTATTAACTGTGGCATATTT
GTTCTTTTTTGCTCTTCTAGAAATTTGAATCGGGCAGGCCTTTCCTGGTGACACTCAATC
CCCCTTGTGTTCCGGATCATGTACTACTTAAATGGAATACAAGCCTTCCTGTTCCGTCTG
TGGCCGCGGCGAAGGCTTATCTTCAGCTTGATCAGATCCAGGGAAAGAGGGGAATATGGT
TCTGTGGGGCATATCAAGGTCATGGCTTCCATGAAGACGGATTAAAGCGGCTCAAGGTTT
GCTTGGAAAGAAATGTGAGCTTCTGCTGAACCCAAAGAATATGATTCCATCATGGATTGA
GGCTGGGGCACGCCTTCTAGTTGCAAGATTTTTCAACCAATACATATCCATTGGTAACTT
GATATTGGTCGAAGAAGGAGGTAGTGTGTTCAGCTTTGGTAAAGCTTGCGACAAATGCCG
TGTAAAATCTGTCATCCAAGTTCATGACCCCTTGTTCTATTGGAAGGTTATCTTCTCTTT
TCTTATTCTGACTACACATGCATTTAAAAAAATTAAGAGTGGTGATGTGCCCATGCATGA
TTCATAATTTCCTATATACTCCACTGCATTTGCTTTGTACAACTTTTTCATTCGAACCAC
ATGTGTGTACCCTGGCTCTCTCATGGCTTTCAGGTTGCAATAGAAGGAGGCATGGGCTTG
GCAGAATCCTATATTGACGGTTGTTTCTCTGTTCTTGACAAGAGAGAAGGCCTTCTAAAT
CTTATCCTGATTCTCATTGCTAACAGAGACGAGCGTAGGAACCGCCGCATTGCCAGAAAA
GGGTTCTGAAACCTTCAATTGTCCACTAGATTCCTATGAATTGTTTGATAAAAATGAAGT
AGTACCTATGAGTATGCGTTTGTGATTAATCCTGTACATGCTGTTTTTCGGTTTGCAGGT
TTTGGTTGTCACCCTTCCATGTAATAGCTCAATTGGCATATGCTAAACACTTTTTGCGCC
AGGCAACAAGGAAGAACACTGCAACACAAACTCGTCGAAACATCTCTGAGCACTATGATC
TTAGTAACGACTTTTTTTCGCTTTTTCTGGATAAATCGATGACTTACTCCTGTGCAGTTT
TCAAGGAGAACGAAAGCTTAGAAGCAGCCCAACAACGTAAACTTAGCCTTCTAATCAACA
AGGCTAAAGTCAAGAGGGAGCATCATGTTCTTGATATCGGTAGCGGCTGGGGAAGTTTAG
CAATAGAAACAGTTAAGCAAACTGGCTGCAAATACACTGGAGTCACTTTATCGGCGGAGC
AGCATAAATACGCAGAAAGAAAAGTAAGAGAAGCTGGCTTAGAGGACCGCATAAATTTTC
TGCTGTGCGACTACCGTAAAATACCACCTTTTAAGTATGACGCAATCATAAGCTGTGGTA
TGATTGAACATGTTGGCCATGAATACATGGACGAATTTTTTGCTTGCTGTGAGTCTTACT
TGGCTGAAGATGGGATATTGGTCCTCCAGTTCATCTCAGTTCCAGAGGAACGGTACGAGC
AATACAGAAAAAGGCCAGACTTCATAAAAGAGTACATATTCCCTGGTGGTTGCCTTCCTT
CTTTGGCCCGTATAATGTCTGCCATGACCGCGTCATCAAGGTTCTGCATAGAGCATGTCG
AGAATATTGGGCCCAATTACTACACAACTCTGATGCACTGGAGGGACAACTTCATGGCCA
ACAGAGACCAAGTTTTGGCCCTGGGCTTTGATGAAAGGTTCCTCCGTATATGGGAGTACT
ACCTCATATTCTCTGCGGCTGGTTTCAAGTCACGAGCAATTGGAGATTACCAGGTTGTTT
TCTCTCGTCCAGGCAATCGTCGTCTAGGCCAGCCTTGATGGCCGGAGACAACATATCCTT
CTCCGTTCAGCGGCCGAATGGTTACTTGTCAGTACCGTACGAGATTTTAATAAGTCAGTC
CTGGAATGATTCGCTCATGCCGGAATCCTACTCAGGTGGTTTGGTGATCTATCTTGTTGT
TTAACCATGCAATGGTTAGTTTTTCGTGGGAGTGTCTTGTTATCCATCAATTAACTAGAA
TTTTGAGAATTGTATGTAAGGAACTGGTTTGTTTGCTTTAATATCTATGAGGAAGAGTTG
ATGTCCTTGCTTGTAGTTTCTCATGATCTGATCTATTCGGTGTTTGCCGTTTTCAATGCT
TGCTTGCGAAGAGAATCAATATATGTTCCTGAGTATCATGTTTCACCAATGACTGAGGAG
GACTTTTGCTAACAGAAAAGATGAGATCTCTTTGGCTAGTTTTTGTTAAAGGGGATGGCA
GCAGTAAATACCTTCGTCCTTCCTCCATGTTGGAATCAAGAAGTTAGTGTGCAGTGACGA
GTGTGGACTCAAGTGTTGCAACACGTACGTACGCATGCACCTAAGTTGCAAGCTACGCAA
AGCTAACTACTGTACGTACTACAGTACAAGCTGCAGGTTGTAAAGTGGTCTGTATATCGT
GTGATCGTAATTGCCGGTTGGTAAAGCTAGCACAGTGACATTTCTTCA



Protein Sequence (262 aa)

>BART1_0-u16377.007 262 150831_barley_pseudomolecules
QIPVCTGTWSCSSQDVLSLSAFLVLSFCRNHGLLQLFRHSQLPTVKPSSQSYVNKVKGEL
ESIGCRIKTSCRVKSVSSLDGAAGYRVLENDGSVETYDSVIFGVHASNALKLLGAEASHH
ERRILGACQYVQRDIYLHCDQNLMPRKSAAWSAWNFLGTTSRGFSITYWLNQIQVNSLLF
VCIVWYNELVLLMTYFFDETTLPWLYYNAETILCVLHVLRTRHASSAKRKKPNEEKNIFI
MLELRTPCRVGSHNNIKTEASA