Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u42835.002

ChromosomeExonStartStopDirection
chr6H13489173234891700+
chr6H23489215334891926+
chr6H33489247234892398+
chr6H43489343434893231+
chr6H53489405934893848+
chr6H63489452534894361+
chr6H73489518734894927+
chr6H83489610334895891+
chr6H93489641434896192+
chr6H103489746934896755+


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
morexEMB000.0000332019
morexETI0.00000064670400.00000020762
morexLEA000.217261
morexEPI0.0000002473130.0000002355880.000000117166
morexROO0.0000002001170.0000004485260
morexROO20.0000002247010.0001038230.000000234984
morexNOD00.00002148290
morexRAC00.00000002280070.0000000199078
morexINF1000
morexINF20.000000001342670.000004597040.0000135111
morexCAR500.0000003151330.00634122
morexCAR1500.0000001342740.000038
morexLEM0.0000011220200.00000000122012
morexLOD0.0000001012450.000000003887710.00437084
morexPAL000
morexSEN000.0000000031019



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os02g03690.1 +3 0.0 565 262/307 (85%) protein|beta-amylase, putative, expressed
TAIR PP10 AT5G45300 @ ARAPORT
AT5G45300.1 @ TAIR		 +3 3e-172 388 181/289 (63%) Symbols: BMY2, BAM8 | beta-amylase 2 | chr5:18353636-18356696 FORWARD LENGTH=689
BRACH PP3 Bradi3g02800.2.p +3 0.0 580 271/309 (88%) pacid=32818287 transcript=Bradi3g02800.2 locus=Bradi3g02800 ID=Bradi3g02800.2.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 (2329 bp)

>BART1_0-u42835.002 2329 150831_barley_pseudomolecules
NNNNNGCCCCCTCTCCCTCCCCCGGCCCAATTCCAGGGTGCTTTCCAGGCCACTTCTCTG
GAAACCCCAGTTTTTACCAACTCTCTGAACAGCTATGCCGTTGGGACGCCATTAGATTCC
CAGGCTTCAGCCCTACAAACAGATGATAGCCTGTCACCGTCGTCATTGGACTCAGTCGTG
GTGGCAGAGCAATGCATAAAGAATGAGAGCTTTGGGAATTCAAGTTCAGCCAATTCTTTG
AACTGTATGGGTAGTGATCAGCTATTGAGAGCATCAGCAGTATGGGCGGGTGATTACACG
AAAACTCCATATATACCATTGTACGCCTCTTTGTCTATGGGCATTATCAATTGTTATTGC
CAACTGGTTGATCCTGAGGCTGTACGTGCTGAACTAAGGCATCTGAAATCTTTGAATGTT
GATGGAGTTATTGTTGACTGTTGGTGGGGGATTGTAGAAGCCTGGACTCCTCAAAAGTAT
GAATGGTCTGGCTACAGGGACCTTTTTGGTATCATTAAAGAGTTCAAGCTAAAAGTTCAG
GTTGTGTTATCATTTCATGGGTCTGGGGAGTGTGGATCTGGTCCTGTGTTAATTGCTCTT
CCTAGGTGGGTAATGGAAATTGCACAAGAGAACCAAGATATATTTTTTACCGATCGAGAA
GGTAGGAGGAATACAGAATGCCTCTCCTGGGGAATTGACAAAGAGCGTGTCCTTCGAGGG
AGAACTGGCATCGAGGTATTGGGTCATCCTTGGTTTATTTTGATTTCATGAGGAGCTTTC
ATATGGAATTCAGAACCCTATCTGAAGAGGGTCTTATTTCTGCTATTGAGATTGGATTGG
GTGCTTCTGGAGAGCTAAGATACCCTTCGTGTTCAGAAAAAATGGGCTGGAGATATCCTG
GTATTGGTGAGTTTCAGTGTTATGACAGGTATATGCAAAAGAACCTACGGCAATCAGCCT
TGACACGGGGGCATTTGTTTTGGGCCCGTGGGCCTGATAATGCTGGCTACTATAATTCAA
GGTCACACGAGACTGGCTTTTTTTGTGACGGAGGTGATTATGACAGCTACTATGGGCGGT
TCTTCCTTAATTGGTATTCTGGAATCCTTATAGATCATGTGGATCAGGTGCTCTCACTTG
CTACTCTTGCATTTGATGGAGCAGCAGTTGTGGTGAAGATCCCCTCCATCTATTGGTGGT
ACAGAACTGCAAGCCATGCTGCAGAGCTTACTGCAGGATTCTACAACCCTACAAATCGAG
ATGGATACTCTCCAGTTTTCAGAATGCTCAAGAAGCATTCCATAATTCTTAAAGTGGTTT
GTTATGGCCCAGAATTTACAGTTCAGGAGAATGATGAAGCACTTGCTGATCCAGAAGGTT
TAACCTGGCAGGTTATGAACGCAGCATGGGATCATGGTCTATCTGTAAGTGTAGAGAGTG
CTCTTCCATGTCTTGACGTGGACATGTACTCTCGGATCCTTGACACAGCAAAGCCGAGGA
ATGATCCTGACCGACACCATCTCTCATTCTTTGCATACCGTCAGCGAACTCCATTCCTTT
TGCAGAGAGATGTGTGCTTCTCAGAGCTTGAGACCTTCGTAAAGTGTATGCACGGGGAGG
CTATCCAGAACTTTGTAGATTGAACTTGCTTTGGCGACGCATTCCCTGTTATGTTGCAGC
TCGCGTTCTGCAAATTTCCGGATTCCCTGCGTAGCTATCACAAGCTTTAACTCATATTGC
TGATTGCTGCGTTCCGGCCATCCCCGCCTTTGCTATGGGTCAGCTAACCAGATGGCACTG
AAACTGTTGTGCTGGTGGTGGGCAAGGATTAGCATCCCTTATCTGTGGTACAGGGCTGAT
AGTTCAGCAAGTTTTTACCGTGGTGTGACCTAGCTTGGGCTAGAAAGATGGAAAGAATGG
CGATGTATATATCTAATAGTACTACACTATCATGCTCTAAGATGCAAAGAAAGCGTCTGA
ATTCTCCATGGTAAGCTGCTCGATGACAAGTGCTTGCAGTGGGTTTCCGAGGGATTCCTT
GAACTCGCTTTTCCCTTTCTATTTTCCTTTGAACCTTATTGGGACATTTGTATTTCCGTT
ATGAAAGTAATGGAAAGGGGTTATGCCCAGCTCAAAAAAAAATAAAATCTCCATGATGCC
GAAACATCTTTCTAGACTACGACTGAAATTTGGACTGTCTGAGCTGAGGTTAGGTCTGAA
ATGGTTGTTAGTACTCTGGGAGCTTGTATATAGTATTTTGTTGATCCTAACTTTCCATAC
CAACAAAATCCAATGAGCACCCACTGCAAGCTGAGACCTCTTATTTGAT



Protein Sequence (291 aa)

>BART1_0-u42835.002 291 150831_barley_pseudomolecules
MRSFHMEFRTLSEEGLISAIEIGLGASGELRYPSCSEKMGWRYPGIGEFQCYDRYMQKNL
RQSALTRGHLFWARGPDNAGYYNSRSHETGFFCDGGDYDSYYGRFFLNWYSGILIDHVDQ
VLSLATLAFDGAAVVVKIPSIYWWYRTASHAAELTAGFYNPTNRDGYSPVFRMLKKHSII
LKVVCYGPEFTVQENDEALADPEGLTWQVMNAAWDHGLSVSVESALPCLDVDMYSRILDT
AKPRNDPDRHHLSFFAYRQRTPFLLQRDVCFSELETFVKCMHGEAIQNFVD