Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u26461.009

ChromosomeExonStartStopDirection
chr4H11355329313552715-
chr4H21355433013554251-
chr4H31355458213554412-
chr4H41355570813555595-
chr4H51355627013556187-
chr4H61355771413557579-
chr4H71356019313559662-


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
morexEMB1.046151.096410
morexETI01.946150.000227207
morexLEA0.477190.969751.11928
morexEPI0.8665561.27781.05308
morexROO2.514490.2139940.622628
morexROO200.8845410.157476
morexNOD1.380431.271360.627296
morexRAC2.071082.218261.71522
morexINF14.169345.910362.71187
morexINF22.329632.693163.42864
morexCAR52.259060.5662521.03898
morexCAR15000
morexLEM0.1838161.217981.44029
morexLOD0.9726980.4946240.549304
morexPAL1.8779101.0199
morexSEN00.4968960.00573272



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

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os03g42350.1 +3 4e-72 237 131/256 (51%) protein|ankyrin, putative, expressed
TAIR PP10None-----
BRACH PP3 Bradi2g23634.1.p +3 8e-74 241 133/251 (53%) pacid=32774779 transcript=Bradi2g23634.1 locus=Bradi2g23634 ID=Bradi2g23634.1.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 (1696 bp)

>BART1_0-u26461.009 1696 150831_barley_pseudomolecules
AGGCTACTCTTTGAGGGCAAATTAATGTTTATTTTAGGATAGTTTGGTTGTTTAGTTATT
GCACACATGTATGCACCCCAGCTCTGAGGATGTATTTGATTCTTCTATTCGGGTAGTCGA
ATGTCTAATTTTCATGCGTCAGTTCCATTTAACCAATACTCTCTCGAGCATTATGAAAAT
CCTGCGTCATATCGTATCTAACTCGATGGGTCTACTTTGTTTGTCTTGGGGAGCCATATC
TAAATTCTATGCTCTCAGAGAAGACAGGGCAGTGTTAGGAAACTTCTGTGGTGGTATTCT
TTTGGAGATAAGACATGCTTTGATACAAAAAAGATCTCATTTCTTGCTACGCTGAGAAGT
GCTTTGATATAATTTCATTTTTGTGTGTTTGTTTGCTTTATAGGTAGAACACCTCTGTTT
TTTGCAACATACTGCAATGGGGGTACTGCTGAGTATCTTCTTGATCATGGAGCTAATCCA
GACAAAGCCGATAACAATGGGGGTTTCCTGTTACATTATGCTGCTGAAATAGTTGTGAAA
TGGTAGAGCTTTTGCTTGCAAAAGGAGCTTACGTTGACCCGGTATGTGCTCGTGGAACAC
CACTTCATATTGCTGCTGGTGGAGGGCAGTATGGTGCTATGAAGATTTTATTGGACCACA
GTGCAGATTACAACAAGATGGTAGATGGTGTGACACCTCTTATGGCTGCTAAAGATGCCA
ACTCAACGGAATGTATCAAGCTCCTAGTTAAGGTTCAGAAGGAGCCTATGCTTAAACGAG
AAATCACGGCATCAGAGCTTATATCACTAGGGAGTATCTCTTTAAAGAAAAAAGATTATG
TTGTCGCAGCAAAATTGTACAGTCAGGCAATGCAGCTTGATCCTGGTGATGCAGTCTTGC
TCTCAGACAGGAGCCTTTGTTGGCTTCACATGGGATATGGAAGAAAGGCTTTGCTAGATG
CTAATCAATGCAGAAAAATGCGGCCTCTCTGGCCAAAAGCTTGTCGCCGGCAGGGTGAAG
CTCTGATGCTACTGAAGGACTATGAGGGTGCAAGTGAACGGTTCTTGGATGGACTCAAAT
TGGACCCAGTGGACACTGCTATCGAGGATGCATTACGGGAAGCTATGAAGTCCTTGATGA
CGTCTCGGAGCACGAAAGCCAATTGACTATTTGCGTGTCGCAGGGAAATCAGCTGAAGAC
TTGAAACGGGTCAGGAGTTTCTCCATTTTGCGCAAAGACCGATTTCCTTTAGAAAGTAAA
GCGACGTGTCTCATGGCCTGATGAGAGTGTATTACCGTCGGCATGTTTTGTATGAGCATG
ACTGTTGATGCTTGCAGTAGTACCCCGCGGAAACTCGTCAGTTGCCATCTATCTGTCGTG
TATTACAGGCTCTTATGTCAGGTATTTGGGTCTTCTGAAGCTCACTCGTCTGCCGCTCCT
GGTGCAGCGTCCCCGAATGATCGCAGCCTCTGCATTTGTCTTGTTGCGGTTTTGCTGAAT
TGCCTCCTGGCTCTGTAGTGTTTTAACTACTCAACGATGGTACAATGTAGTGAAGATGGA
GATATCTTGTGTAGGTTTTCTTCGTCCTGTGGGTGCATAATTAGAGGAGCGTGATGTAGG
CTAAGTTTTGGTAGCTGCTATCCCGTCTTGTTTTCCTGACTTCAGCTGGTTGCTGTGTGG
GCTCAATGGCATNNNN



Protein Sequence (208 aa)

>BART1_0-u26461.009 208 150831_barley_pseudomolecules
MVELLLAKGAYVDPVCARGTPLHIAAGGGQYGAMKILLDHSADYNKMVDGVTPLMAAKDA
NSTECIKLLVKVQKEPMLKREITASELISLGSISLKKKDYVVAAKLYSQAMQLDPGDAVL
LSDRSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEALMLLKDYEGASERFLDGLK
LDPVDTAIEDALREAMKSLMTSRSTKAN