- Transcript BART1_0-u33573.001
- Transcript IDBART1_0-u33573.001
- Gene IDBART1_0-u33573
Barley RTD
Exon Structure of BART1_0-u33573.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 84450462 | 84450095 | + |
| chr5H | 2 | 84450961 | 84450535 | + |
| chr5H | 3 | 84451442 | 84451355 | + |
| chr5H | 4 | 84451613 | 84451552 | + |
| chr5H | 5 | 84451927 | 84451787 | + |
| chr5H | 6 | 84463243 | 84461517 | + |
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
| Sample | Treatment | Rep 1 | Rep 2 | Rep 3 |
|---|---|---|---|---|
| morex | EMB | 0.221794 | 1.4999 | 0.71943 |
| morex | ETI | 0.842918 | 0.614687 | 0.78378 |
| morex | LEA | 1.97272 | 0.326907 | 0.315969 |
| morex | EPI | 0.354482 | 0.445835 | 0.304498 |
| morex | ROO | 0.000000216149 | 0.176763 | 0.0923309 |
| morex | ROO2 | 0.197935 | 0.0541118 | 0.171356 |
| morex | NOD | 0.336874 | 0.749965 | 0 |
| morex | RAC | 0.388173 | 1.2275 | 0.716057 |
| morex | INF1 | 1.80659 | 2.27426 | 1.63803 |
| morex | INF2 | 2.4695 | 2.26474 | 2.34995 |
| morex | CAR5 | 0.45382 | 0.700217 | 0.924663 |
| morex | CAR15 | 0.304637 | 0.0999963 | 0.22574 |
| morex | LEM | 0.764149 | 0.650064 | 0.541986 |
| morex | LOD | 0.399109 | 0.119274 | 0.232245 |
| morex | PAL | 0.50103 | 0.96821 | 0.727263 |
| morex | SEN | 0.0730257 | 0.437215 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g38740.1 | +1 | 2e-109 | 370 | 177/244 (73%) | protein|Dicer, putative, expressed |
| TAIR PP10 | AT3G03300 @ ARAPORT AT3G03300.3 @ TAIR |
+1 | 1e-75 | 271 | 136/247 (55%) | Symbols: DCL2 | dicer-like 2 | chr3:768020-774833 REVERSE LENGTH=1388 |
| BRACH PP3 | Bradi1g15440.3.p | +1 | 1e-136 | 436 | 205/256 (80%) | pacid=32792175 transcript=Bradi1g15440.3 locus=Bradi1g15440 ID=Bradi1g15440.3.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 (2813 bp)
>BART1_0-u33573.001 2813 150831_barley_pseudomolecules TGCCGCTTCGTCTGACGCCAAACGGCAATGGTCCCGAGCGGGTCTCCTCCCTTCCCCCCA CTTCCTTTCGAGTCAAAAGGTGAACCCGAAGCGAAGCGGCCAAGCAGCAAAACCTTCGCC CCTAAGCTCACCAAATCAAACCCCACGAGCGCTCGACACAGATTCACCCGTGCGCCTCGG CAGCAGCCCAAGCGTACTCGCCGCCTCCGCCGCCTCGCTGCCGCCGCGCCGCCGATTTCG TTCTCGCGCCAGCCCAGAATCTCATCAGACACCACCATGGATGCCGCCGCCGCCGCCGCC CCCCCCGCCGCGGACTCAGCCGTGACAGAGGAAGCACACAAGGAGGATCCGGAGATCGTA GCGAGATGGTACCAGCTGGAGGCGCTGGAGCGGGCCATGAGCGGGAACACGGTGGCTTTC CTGGATACGGGGGCCGGGAAGACGCTCATCGCGGGGTTGCTGCTGCGCGCCTACGCGCAC CTCGTGCGGAAGCCGGCGCGGGAATTCGCCGTCTTCCTCGTCCCCACCCGCGTGCTCGTG GAGCAGCAGGCACGGGTCGTCGAGGCGCATACCGACCTCCGCGTCTCCAAGTTCACCGGC GACATGGGCGTCGACTTCTGGGACGCCGCAATCTGGCGCCGCGTGGTGGACGACGCCGAG GTGCTTGTCATGACGCCGCAGATCCTCCTCGACAACCTCCGACACAGCTTCTTCCGCCTC CAGGACATCGCGTTGCTCATCTTCGACGAGTGCCACCGCGCCAAGGGCAACTCCCCGTAT GCGTGCATTCTCAAGGAATTCTACCACCCTGTAATGAATTCTAGACCACGGGGCCCTCTG CCGAGGATATTTGGGATGACTGCTTCGCCCACAGATGCAAAAAATCAGCTGCAAGAGAGC TATTCCAAACGAATCGTCGAACTGGAGAATCTATTGAACTCAAAGGTGTACACAGTTGAC AATGAATCGGCTTTATCGGAATATATACCATTTGCCACTACGAGGATTGTGGAGTACGAT GATTCTATCATCCCATCCAACTCACATAACCATATTAACAGTTGTTTGGACAGGTTGCAA GAGAAGCGTTTCATGCAGGACAACAACACCCTCTAAGATGTGTTTCCCAGGCATAAACGC CGTCTGCATCGGTTGGACTACTGAATGAGCTATCTTCGTCAACCTATTCGTGCCAACCTT TGTAGAAAATTTGAAGCTGACATTGAGCAAACATATCGGTCTGAACTGCTCAATGCGTAC AACCTCCGCCTTCTTTGGCAACAACGTGATTGTTCCAAAGTTAAGGTGGAATAGCTGTAA CTGGCCATTAAATAAATCATGGAACATAGGCAACATATCCCCCTTAATGATATGCTAGCA TTTTTTTTATAAAATTCCGCTGGAAACCCGTCTGGCTCCGGTGCCTTATTTTGTTTGTTT GTGCTATTGAGTCGTACACCTCCTTCTCGGTAGATGGAGCTGATAGCATCTCATTCTCAT CTGAATTGAGTTGAGGTATATCATGAGTTGTGCTTTCATCCAAAGTGACCAAATAATTTC TTGCAATATTCAGAGATATATAATTTGAAGTTCTCGTGACCTACTATTGTTCCTTCGTCT TGCTCAAGTTGGGCTATTTTTTCTTTCGATGTTTGCCGTTTGCAATCATGTGAAAGAATT GAGTGTTATCGTCCCCATGAACGACCTTTGTCACCTTAGCTCGAAGTGCCCATTTCACCT CCTCTTCTCTCAAAAGTTTTTGCAAATTCTTCTCAGCTTCAATCTTGTTATTCCTATAAG TCAGATTGAGATGAGCAGACTCAGCTTTCACATCTAATTCATCAATTAGACGAATGAGTC TTTCTTTTTCTATTATATATATATCGCTTTGATTTTTCGCCCATCCTCTCAAGAACTGGC GCAAGCGTCGGATTTTGTTTTGCCATCTTTCTATATTCGTAGATCCACCTGAATCCCTAG CCCATTCGGTAGCTTTGAGATCCATGAATCCTTCTCTTTCGAACCAACTTAGCTCAAAAG AGAAGAAATTTCTATTTCCCGCATGTTTGGCTTCCCTTGAGTCAACCATGAGACGTGTGT AATCCGAGATTGCTCTTTGTAAAGCCTGTACTGAAACCAGCGGGTACTTCTGTTCCCACT CGACACTGGTCAATACTCGGTCCAACTTCTCATATGTTGGCACCGGTAGTGAGTTCGCTC ATGTGAATTGTCTACCAGTGAGGTCAATCTCCCTCAAATCGAGACTCTCAATAACCATGT TGAACATAAGTGACCACTGTGCATCGAAGTTATCATTGTTTTTTTTCATCTTGTCTTCTA ATGAGATTAAAGTCTCCCCCACCATAATTGGCAGTCTTTCTTCTCCACAAATTCTTACTA GATCGGCAAAAAAAATCAGATTTGAGCTCCGGTTGCGCCGCCCCATATACGGCCACCAGA GCCCACCTGAAACCATCAAGTTTCGACCTCACACGAAATTTGACAGAAAACTCGCCATAA ACCACTCTCATCACCTCTAAAGTTTCACACTTAACCCCAAGTAAGATTCCACTAGATCTA CCCCTTGGTGGCAAGCAGTGCCAATCAAAATCAAGTCCTCCTGATAGAGTATTGAGGAAT TGCGGTGTGAAGTTATCTCTGCCCGTTTCTTGTAATGCCATAAAGTCAAGCTTATATTCT AGCGATGCCTCTTGAAGAAACCTTCTTTTAGCCAAGTCTGCTAGACCTCTGCTGTTCCAA AAGATTCCTTTCATATTTCATCATGAATTTTTTTTCTTCTGCTTTATTCTCGC
Protein Sequence (362 aa)
>BART1_0-u33573.001 362 150831_barley_pseudomolecules MVPSGSPPFPPLPFESKGEPEAKRPSSKTFAPKLTKSNPTSARHRFTRAPRQQPKRTRRL RRLAAAAPPISFSRQPRISSDTTMDAAAAAAPPAADSAVTEEAHKEDPEIVARWYQLEAL ERAMSGNTVAFLDTGAGKTLIAGLLLRAYAHLVRKPAREFAVFLVPTRVLVEQQARVVEA HTDLRVSKFTGDMGVDFWDAAIWRRVVDDAEVLVMTPQILLDNLRHSFFRLQDIALLIFD ECHRAKGNSPYACILKEFYHPVMNSRPRGPLPRIFGMTASPTDAKNQLQESYSKRIVELE NLLNSKVYTVDNESALSEYIPFATTRIVEYDDSIIPSNSHNHINSCLDRLQEKRFMQDNN TL