Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.005

ChromosomeExonStartStopDirection
chr2H1752588225752587992+
chr2H2752588451752588346+
chr2H3752588933752588832+
chr2H4752589073752589014+
chr2H5752589262752589184+
chr2H6752589517752589364+
chr2H7752589725752589602+
chr2H8752590240752590063+
chr2H9752590438752590410+
chr2H10752590913752590765+
chr2H11752591094752590992+
chr2H12752591357752591262+
chr2H13752591736752591444+
chr2H14752592021752591959+
chr2H15752592164752592111+
chr2H16752592439752592278+
chr2H17752593033752592963+
chr2H18752593214752593121+
chr2H19752593626752593490+
chr2H20752593809752593729+
chr2H21752594122752594017+
chr2H22752595146752594437+


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
morexEMB9.480846.1821611.0378
morexETI0.3376290.344330
morexLEA4.038112.138020
morexEPI00.283740
morexROO0.9114230.8398980.0511986
morexROO20.000003552460.1267110
morexNOD00.7741880.0000180275
morexRAC9.2333713.564815.4719
morexINF130.28545.178613.8232
morexINF216.600727.986929.2203
morexCAR501.31340.856585
morexCAR1500.2066720
morexLEM01.021570.715693
morexLOD00.8618050.177705
morexPAL000
morexSEN0.4394800.613787



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os12g16650.1 +2 0.0 564 291/463 (63%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23530 @ ARAPORT
AT3G23530.1 @ TAIR		 +2 6e-163 503 264/464 (57%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8437472-8442597 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +2 0.0 642 325/464 (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 (3185 bp)

>BART1_0-u16377.005 3185 150831_barley_pseudomolecules
TCTGTAGGTAACATATCCGCAAATGATGGAATGGTTAGAAGGGCTCGGGGTTGAGATGGA
GAGGTCAGACATGTCTTTCTCTGTGAGCACACAATCTAAAGGAGGCGGTGGAGGATGTGA
GTGGGGAAATGGTAACGGTATATCGAGCCTCTTGGCGCAAAAAACCAACATACTGAAACC
CAGTTTTTGGCACATGGTCTGTGAGATACTCAAGTTCAAGAACAATGCCCTGACGTACCT
GGAGGACCATGAACGTAACCCTGATCTGGATCGTAATGAGACACTGGGGCAGTTCATTCA
GTCGCATGGATATTCCCTATCGTTTCAAGAGGCTTATCTTATTCCAGTCTGCACAGGCAC
GTGGTCATGTTCATCACAAGATGTTTTGAGCCTGTCTGCTTTCTTGGTGCTGTCATTTTG
CCGTAACCATGGCCTTCTTCAGCTGTTTCGTCACTCCCAGTTGCCCACTGTCAAGCCTAG
TTCGCAGTCCTATGTAAACAAGGTAAAAGGAGAATTGGAGAGCATTGGCTGTCGAATTAA
AACCAGTTGTCGGGTCAAATCTGTTTCAAGTCTTGATGGAGCAGCTGGCTACAGAGTCTT
GGAGAATGATGGTTCAGTGGAAACATACGACAGTGTCATCTTTGGGGTCCATGCATCCAA
TGCTCTCAAATTATTAGGAGCTGAAGCATCACATCACGAACGAAGAATTCTAGGTGCCTG
TCAGTATGTCCAAAGAGATATATACCTCCACTGCGATCAAAATTTGATGCCCCGAAAATC
AGCAGCATGGAGTGCGTGGAATTTCCTTGGGACAACTAGTAGGGGTTTTTCTATTACTTA
CTGGCTAAACCAAATTCAGAAATTTGAATCGGGCAGGCCTTTCCTGGTGACACTCAATCC
CCCTTGTGTTCCGGATCATGTACTACTTAAATGGAATACAAGCCTTCCTGTTCCGTCTGT
GGCCGCGGCGAAGGCTTATCTTCAGCTTGATCAGATCCAGGGAAAGAGGGGAATATGGTT
CTGTGGGGCATATCAAGGTCATGGCTTCCATGAAGACGGATTAAAGTCTGGGAAAGCAGC
GGCTCAAGGTTTGCTTGGAAAGAAATGTGAGCTTCTGCTGAACCCAAAGAATATGATTCC
ATCATGGATTGAGGCTGGGGCACGCCTTCTAGTTGCAAGATTTTTCAACCAATACATATC
CATTGGTAACTTGATATTGGTCGAAGAAGGAGGTAGTGTGTTCAGCTTTGGTAAAGCTTG
CGACAAATGCCGTGTAAAATCTGTCATCCAAGTTCATGACCCCTTGTTCTATTGGAAGGT
TGCAATAGAAGGAGGCATGGGCTTGGCAGAATCCTATATTGACGGTTGTTTCTCTGTTCT
TGACAAGAGAGAAGGCCTTCTAAATCTTATCCTGATTCTCATTGCTAACAGAGACGAGCG
TAGGAACCGCCGCATTGCCAGAAAAGGGTTCTGAAACCTTCAATTGTCCACTAGATTCCT
ATGAATTGTTTGATAAAAATGAAGTAGTACCTATGAGTATGCGTTTGTGATTAATCCTGT
ACATGCTGTTTTTCGGTTTGCAGGTTTTGGTTGTCACCCTTCCATGTAATAGCTCAATTG
GCATATGCTAAACACTTTTTGCGCCAGGCAACAAGGAAGAACACTGCAACACAAACTCGT
CGAAACATCTCTGAGCACTATGATCTTAGTAACGACTTTTTTTCGCTTTTTCTGGATAAA
TCGATGACTTACTCCTGTGCAGTTTTCAAGAACGAAAGCTTAGAAGCAGCCCAACAACGT
AAACTTAGCCTTCTAATCAACAAGGCTAAAGTCAAGAGGGAGCATCATGTTCTTGATATC
GGTAGCGGCTGGGGAAGTTTAGCAATAGAAACAGTTAAGCAAACTGGCTGCAAATACACT
GGAGTCACTTTATCGGCGGAGCAGCATAAATACGCAGAAAGAAAAGTAAGAGAAGCTGGC
TTAGAGGACCGCATAAATTTTCTGCTGTGCGACTACCGTAAAATACCACCTTTTAAGTAT
GACGCAATCATAAGCTGTGGTATGATTGAACATGTTGGCCATGAATACATGGACGAATTT
TTTGCTTGCTGTGAGTCTTACTTGGCTGAAGATGGGATATTGGTCCTCCAGTTCATCTCA
GTTCCAGAGGAACGGTACGAGCAATACAGAAAAAGGCCAGACTTCATAAAAGAGTACATA
TTCCCTGGTGGTTGCCTTCCTTCTTTGGCCCGTATAATGTCTGCCATGACCGCGTCATCA
AGGTTCTGCATAGAGCATGTCGAGAATATTGGGCCCAATTACTACACAACTCTGATGCAC
TGGAGGGACAACTTCATGGCCAACAGAGACCAAGTTTTGGCCCTGGGCTTTGATGAAAGG
TTCCTCCGTATATGGGAGTACTACCTCATATTCTCTGCGGCTGGTTTCAAGTCACGAGCA
ATTGGAGATTACCAGGTTGTTTTCTCTCGTCCAGGCAATCGTCGTCTAGGCCAGCCTTGA
TGGCCGGAGACAACATATCCTTCTCCGTTCAGCGGCCGAATGGTTACTTGTCAGTACCGT
ACGAGATTTTAATAAGTCAGTCCTGGAATGATTCGCTCATGCCGGAATCCTACTCAGGTG
GTTTGGTGATCTATCTTGTTGTTTAACCATGCAATGGTTAGTTTTTCGTGGGAGTGTCTT
GTTATCCATCAATTAACTAGAATTTTGAGAATTGTATGTAAGGAACTGGTTTGTTTGCTT
TAATATCTATGAGGAAGAGTTGATGTCCTTGCTTGTAGTTTCTCATGATCTGATCTATTC
GGTGTTTGCCGTTTTCAATGCTTGCTTGCGAAGAGAATCAATATATGTTCCTGAGTATCA
TGTTTCACCAATGACTGAGGAGGACTTTTGCTAACAGAAAAGATGAGATCTCTTTGGCTA
GTTTTTGTTAAAGGGGATGGCAGCAGTAAATACCTTCGTCCTTCCTCCATGTTGGAATCA
AGAAGTTAGTGTGCAGTGACGAGTGTGGACTCAAGTGTTGCAACACGTACGTACGCATGC
ACCTAAGTTGCAAGCTACGCAAAGCTAACTACTGTACGTACTACAGTACAAGCTGCAGGT
TGTAAAGTGGTCTGTATATCGTGTGATCGTAATTGCCGGTTGGTAAAGCTAGCACAGTGA
CATTT



Protein Sequence (483 aa)

>BART1_0-u16377.005 483 150831_barley_pseudomolecules
MMEWLEGLGVEMERSDMSFSVSTQSKGGGGGCEWGNGNGISSLLAQKTNILKPSFWHMVC
EILKFKNNALTYLEDHERNPDLDRNETLGQFIQSHGYSLSFQEAYLIPVCTGTWSCSSQD
VLSLSAFLVLSFCRNHGLLQLFRHSQLPTVKPSSQSYVNKVKGELESIGCRIKTSCRVKS
VSSLDGAAGYRVLENDGSVETYDSVIFGVHASNALKLLGAEASHHERRILGACQYVQRDI
YLHCDQNLMPRKSAAWSAWNFLGTTSRGFSITYWLNQIQKFESGRPFLVTLNPPCVPDHV
LLKWNTSLPVPSVAAAKAYLQLDQIQGKRGIWFCGAYQGHGFHEDGLKSGKAAAQGLLGK
KCELLLNPKNMIPSWIEAGARLLVARFFNQYISIGNLILVEEGGSVFSFGKACDKCRVKS
VIQVHDPLFYWKVAIEGGMGLAESYIDGCFSVLDKREGLLNLILILIANRDERRNRRIAR
KGF