Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u54453.040

ChromosomeExonStartStopDirection
chr7H1514442287514441953-
chr7H2514442474514442367-
chr7H3514442934514442556-
chr7H4514443079514443015-
chr7H5514443422514443298-
chr7H6514443642514443512-
chr7H7514444358514444096-
chr7H8514444643514444470-


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
morexEMB0.6856251.592181.38142
morexETI0.42216400.382962
morexLEA0.85903400.716672
morexEPI0.32375500
morexROO0.4016490.1257280
morexROO200.1155410.166568
morexNOD0.6769380.5289860.310759
morexRAC0.2171650.2800540.360953
morexINF10.47742700
morexINF200.3042610.491312
morexCAR50.6328170.6294531.1046
morexCAR150.3696090.5679010.557583
morexLEM000
morexLOD0.2616960.3556180.656596
morexPAL0.3706160.3649220.280192
morexSEN00.3795630.516608



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os08g09250.1 +3 2e-148 342 163/181 (90%) protein|glyoxalase family protein, putative, expressed
TAIR PP10 AT1G11840 @ ARAPORT
AT1G11840.6 @ TAIR		 +3 3e-115 268 123/171 (72%) Symbols: GLX1 | glyoxalase I homolog | chr1:3995928-3997518 FORWARD LENGTH=322
BRACH PP3 Bradi3g14960.1.p +3 7e-151 348 165/181 (91%) pacid=32813745 transcript=Bradi3g14960.1 locus=Bradi3g14960 ID=Bradi3g14960.1.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 (1580 bp)

>BART1_0-u54453.040 1580 150831_barley_pseudomolecules
CGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTTGGAAGCCTCT
AGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTCCGGGGTGAGC
ATCCCCAAATCCATCTCCTTCGTCCTCTCTTCCGCTTGCTTCCTTTACGCGCCGTTTGAT
TTGTTTCAAGCACTGCGTCTGGGGAGGATTTTTGGAAAACAGAGTGAATCATGGGAAAAC
CCCCGATCCGGATTTTTTAGAACCACCCCCAATCCAACTATGCGTGCAGTTTGCTGGTTT
TTATTTTTATTTTTACTTTGATTTAGCAGAACATCTTCCTGGCGTGGTAGCGGCTGGGCT
GTGGGGGAGGTGCTCATGGATGGATTGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGG
CGCTACTTATTTATCCAGTGACAACAGGGATGGCTACCGGTAGCGAAGCTGGAAAGTCCG
CCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGATGCTGCATGCTGTTTACC
GTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAATGCTTTGGGATGAAGCTGC
TGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGTTTCTTGGGTTTGGACCTG
AGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTGTTGACAAGTACGACATTG
GAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACAAGCTGTCTGAGACAA
TTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTCCA
CTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGGTC
CGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTATCA
TGTTCTACGAGAAGGTATTGTTTTGTAAAATGGGAGGTTGTTTGAAATGTTAAGAGACAG
TATCCTTTCTGTATATTCTCTAGAACTATAGTTTTATATGGGATATTCTAACATTTGACT
TTTATGCAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTATAAGTAC
ACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTGGAGTTGACATAC
AACTATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTTGCTATTGGCACT
GACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAGGTGGAAAG
ATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACCTCTTTCCTTGAC
CCAGATGGCTGGAAAGTGGTATGTCTTCTGGATGTCTTGTGCATAACACTGCTTTATTTG
AATCGAGGGGGTCATTAACAGTTAATTATGAATTCAAGATGTGCTTGCTGTAGTCAATGA
TTGGTTTAAAATTTGAAGAGCTTACCGTAGTCAATGTACTTTGGCAGTTAAATGAATTAA
TTTGAAACGAAACGAAGGAC



Protein Sequence (187 aa)

>BART1_0-u54453.040 187 150831_barley_pseudomolecules
MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK
YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT
REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKVLFCK
MGGCLKC