Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u16377.009

ChromosomeExonStartStopDirection
chr2H1752589262752589180+
chr2H2752589517752589364+
chr2H3752590240752589602+
chr2H4752590438752590410+
chr2H5752590913752590765+
chr2H6752591357752590992+
chr2H7752591736752591444+
chr2H8752592021752591959+
chr2H9752592164752592095+
chr2H10752592439752592278+
chr2H11752593033752592963+
chr2H12752593214752593121+
chr2H13752593626752593490+
chr2H14752593809752593729+
chr2H15752594122752594017+
chr2H16752595150752594437+


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
morexEMB0.7186964.332993.82528
morexETI0.32762200.381429
morexLEA2.924440.2876030.491932
morexEPI00.06314330.205469
morexROO00.3876310.360839
morexROO20.12819500
morexNOD0.4789430.1687960
morexRAC7.635269.3035710.2682
morexINF18.0165.128844.18943
morexINF211.010616.760813.3965
morexCAR50.1132110.3393690
morexCAR15000
morexLEM00.2464880.481976
morexLOD00.3486060
morexPAL0.1290250.2729390.179711
morexSEN0.4045650.1487810.207044



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os07g29220.1 +2 9e-134 401 184/248 (74%) protein|Cyclopropane-fatty-acyl-phospholipid synthase, putative, expressed
TAIR PP10 AT3G23510 @ ARAPORT
AT3G23510.1 @ TAIR		 +2 1e-113 345 158/245 (64%) Symbols: | Cyclopropane-fatty-acyl-phospholipid synthase | chr3:8428071-8433159 FORWARD LENGTH=867
BRACH PP3 Bradi5g02490.1.p +2 5e-132 392 183/260 (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 (3211 bp)

>BART1_0-u16377.009 3211 150831_barley_pseudomolecules
GCAGGTAAAAGGAGAATTGGAGAGCATTGGCTGTCGAATTAAAACCAGTTGTCGGGTCAA
ATCTGTTTCAAGTCTTGATGGAGCAGCTGGCTACAGAGTCTTGGAGAATGATGGTTCAGT
GGAAACATACGACAGTGTCATCTTTGGGGTCCATGCATCCAATGCTCTCAAATTATTAGG
AGCTGAAGCATCACATCACGAACGAAGAATTCTAGGTGCCTGTCAGTATGTCCAAAGAGA
TATATACCTCCACTGCGATCAAAATTTGATGCCCCGAAAATCAGCAGCATGGAGTGCGTG
GAATTTCCTTGGGACAACTAGTAGGGGTTTTTCTATTACTTACTGGCTAAACCAAATTCA
GGTAAATTCTCTACTTTTCGTATGTATAGTTTGGTATAATGAATTAGTTTTACTGATGAC
ATATTTTTTTGACGAAACAACCCTTCCCTGGCTTTACTACAATGCTGAAACCATTTTGTG
CGTGTTACATGTACTCAGGACTAGGCATGCCTCCTCGGCCAAAAGGAAGAAACCAAATGA
AGAAAAAAATATTTTCATCATGTTAGAACTCAGAACACCCTGTAGAGTAGGTTCACACAA
TAACATCAAGACGGAAGCTTCAGCCTAACCCCTCCAGCAGCATGAATGTATTACTTCATT
ATTAACTGTGGCATATTTGTTCTTTTTTGCTCTTCTAGAAATTTGAATCGGGCAGGCCTT
TCCTGGTGACACTCAATCCCCCTTGTGTTCCGGATCATGTACTACTTAAATGGAATACAA
GCCTTCCTGTTCCGTCTGTGGCCGCGGCGAAGGCTTATCTTCAGCTTGATCAGATCCAGG
GAAAGAGGGGAATATGGTTCTGTGGGGCATATCAAGGTCATGGCTTCCATGAAGACGGAT
TAAAGTCTGGGAAAGCAGCGGCTCAAGGTTTGCTTGGAAAGAAATGTGAGCTTCTGCTGA
ACCCAAAGAATATGATTCCATCATGGATTGAGGCTGGGGCACGCCTTCTAGTTGCAAGAT
TTTTCAACCAATACATATCCATTGGTAACTTGATATTGGTCGAAGAAGGAGGTAGTGTGT
TCAGCTTTGGTAAAGCTTGCGACAAATGCCGTGTAAAATCTGTCATCCAAGTTCATGACC
CCTTGTTCTATTGGAAGGTTATCTTCTCTTTTCTTATTCTGACTACACATGCATTTAAAA
AAATTAAGAGTGGTGATGTGCCCATGCATGATTCATAATTTCCTATATACTCCACTGCAT
TTGCTTTGTACAACTTTTTCATTCGAACCACATGTGTGTACCCTGGCTCTCTCATGGCTT
TCAGGTTGCAATAGAAGGAGGCATGGGCTTGGCAGAATCCTATATTGACGGTTGTTTCTC
TGTTCTTGACAAGAGAGAAGGCCTTCTAAATCTTATCCTGATTCTCATTGCTAACAGAGA
CGAGCGTAGGAACCGCCGCATTGCCAGAAAAGGGTTCTGAAACCTTCAATTGTCCACTAG
ATTCCTATGAATTGTTTGATAAAAATGAAGTAGTACCTATGAGTATGCGTTTGTGATTAA
TCCTGTACATGCTGTTTTTCGGTTTGCAGGTTTTGGTTGTCACCCTTCCATGTAATAGCT
CAATTGGCATATGCTAAACACTTTTTGCGCCAGGCAACAAGGAAGAACACTGCAACACAA
ACTCGTCGAAACATCTCTGAGCACTATGATCTTAGTAACGACTTTTTTTCGCTTTTTCTG
GATAAATCGATGACTTACTCCTGTGCAGTTTTCAAGATTAAATTGCTAGGAGAACGAAAG
CTTAGAAGCAGCCCAACAACGTAAACTTAGCCTTCTAATCAACAAGGCTAAAGTCAAGAG
GGAGCATCATGTTCTTGATATCGGTAGCGGCTGGGGAAGTTTAGCAATAGAAACAGTTAA
GCAAACTGGCTGCAAATACACTGGAGTCACTTTATCGGCGGAGCAGCATAAATACGCAGA
AAGAAAAGTAAGAGAAGCTGGCTTAGAGGACCGCATAAATTTTCTGCTGTGCGACTACCG
TAAAATACCACCTTTTAAGTATGACGCAATCATAAGCTGTGGTATGATTGAACATGTTGG
CCATGAATACATGGACGAATTTTTTGCTTGCTGTGAGTCTTACTTGGCTGAAGATGGGAT
ATTGGTCCTCCAGTTCATCTCAGTTCCAGAGGAACGGTACGAGCAATACAGAAAAAGGCC
AGACTTCATAAAAGAGTACATATTCCCTGGTGGTTGCCTTCCTTCTTTGGCCCGTATAAT
GTCTGCCATGACCGCGTCATCAAGGTTCTGCATAGAGCATGTCGAGAATATTGGGCCCAA
TTACTACACAACTCTGATGCACTGGAGGGACAACTTCATGGCCAACAGAGACCAAGTTTT
GGCCCTGGGCTTTGATGAAAGGTTCCTCCGTATATGGGAGTACTACCTCATATTCTCTGC
GGCTGGTTTCAAGTCACGAGCAATTGGAGATTACCAGGTTGTTTTCTCTCGTCCAGGCAA
TCGTCGTCTAGGCCAGCCTTGATGGCCGGAGACAACATATCCTTCTCCGTTCAGCGGCCG
AATGGTTACTTGTCAGTACCGTACGAGATTTTAATAAGTCAGTCCTGGAATGATTCGCTC
ATGCCGGAATCCTACTCAGGTGGTTTGGTGATCTATCTTGTTGTTTAACCATGCAATGGT
TAGTTTTTCGTGGGAGTGTCTTGTTATCCATCAATTAACTAGAATTTTGAGAATTGTATG
TAAGGAACTGGTTTGTTTGCTTTAATATCTATGAGGAAGAGTTGATGTCCTTGCTTGTAG
TTTCTCATGATCTGATCTATTCGGTGTTTGCCGTTTTCAATGCTTGCTTGCGAAGAGAAT
CAATATATGTTCCTGAGTATCATGTTTCACCAATGACTGAGGAGGACTTTTGCTAACAGA
AAAGATGAGATCTCTTTGGCTAGTTTTTGTTAAAGGGGATGGCAGCAGTAAATACCTTCG
TCCTTCCTCCATGTTGGAATCAAGAAGTTAGTGTGCAGTGACGAGTGTGGACTCAAGTGT
TGCAACACGTACGTACGCATGCACCTAAGTTGCAAGCTACGCAAAGCTAACTACTGTACG
TACTACAGTACAAGCTGCAGGTTGTAAAGTGGTCTGTATATCGTGTGATCGTAATTGCCG
GTTGGTAAAGCTAGCACAGTGACATTTCTTC



Protein Sequence (208 aa)

>BART1_0-u16377.009 208 150831_barley_pseudomolecules
QVKGELESIGCRIKTSCRVKSVSSLDGAAGYRVLENDGSVETYDSVIFGVHASNALKLLG
AEASHHERRILGACQYVQRDIYLHCDQNLMPRKSAAWSAWNFLGTTSRGFSITYWLNQIQ
VNSLLFVCIVWYNELVLLMTYFFDETTLPWLYYNAETILCVLHVLRTRHASSAKRKKPNE
EKNIFIMLELRTPCRVGSHNNIKTEASA