- Transcript BART1_0-u27957.019
- Transcript IDBART1_0-u27957.019
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166877408 | - |
| chr4H | 2 | 166878435 | 166878131 | - |
| chr4H | 3 | 166878985 | 166878513 | - |
| chr4H | 4 | 166879322 | 166879237 | - |
| chr4H | 5 | 166880691 | 166879812 | - |
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 | 1.46627 | 1.31829 | 1.32736 |
| morex | ETI | 0 | 0.0492872 | 0.0798995 |
| morex | LEA | 250.283 | 377.791 | 710.553 |
| morex | EPI | 1574.49 | 910.976 | 1382.5 |
| morex | ROO | 0 | 0.23402 | 0.45852 |
| morex | ROO2 | 2.66812 | 2.78524 | 3.20351 |
| morex | NOD | 30.076 | 50.2364 | 71.1589 |
| morex | RAC | 66.369 | 74.2143 | 79.4628 |
| morex | INF1 | 1.97786 | 1.69039 | 3.13203 |
| morex | INF2 | 1.90423 | 2.24885 | 3.76584 |
| morex | CAR5 | 0.467483 | 0.272174 | 0.546661 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 480.984 | 425.286 | 622.949 |
| morex | LOD | 4.13582 | 5.15329 | 3.63621 |
| morex | PAL | 188.27 | 233.413 | 217.597 |
| morex | SEN | 2849.87 | 3549.09 | 2955.9 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g47970.1 | +2 | 0.0 | 618 | 295/323 (91%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.2 @ TAIR |
+2 | 0.0 | 535 | 253/321 (79%) | Symbols: RCA | rubisco activase | chr2:16571046-16573345 REVERSE LENGTH=446 |
| BRACH PP3 | Bradi4g09125.1.p | +2 | 0.0 | 632 | 300/322 (93%) | pacid=32783475 transcript=Bradi4g09125.1 locus=Bradi4g09125 ID=Bradi4g09125.1.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 (2242 bp)
>BART1_0-u27957.019 2242 150831_barley_pseudomolecules CAGACGTATCTGCAGCTGCAGCTGCAGCGTTTGGTCTTGACGGTCCAAGTCATCCAACCG GCCGGCCAAGACGCTCAGAACCCAATCTCCAGCGTGTGGCCTCTGGGGGATCGGGAGGCT GATCCACAAGCAGGGGTGTGTGTATGCCGCCTCCTCCTCCAAGCTCCCCACAGCAGAGCA GCAATATGCCAATCCACGTGTATTTAAGGCGTCACATAGCTCGGCCTCTATACTTTGAGC AGCAGCAGTCATTCATCACTGATCACCAGCACAGCCGCGCGCATCCACCGTTGCTAGCAA GGTCGACCAAGCAGCACAGAGATGGCTGCTGCCTTCTCCTCCACCGTCGGGGCTCCGGTG CGTACCACACACTGATCGATCGATTGATTGATTGCATCTCTTGCTTAGTGATGATATCCT ATCAGTGTCTTCAGCGGCATCTCATGTGTGTATATGTAATGTAATGTAATGTATACAGGC TTCTACGCCGACCAACTTCCTCGGGAAGAAGCTCAAGAAGCAGGTGACCTCGGCCGTGAA CTACCATGGCAAGAGCTCCAAGGCCAACAGGTTCACAGTCATGGCAGCGGAGAACATCGA CGAGAAGAGGAACACCGACAAGTGGAAGGGTCTTGCGTACGATATCTCCGACGACCAGCA GGACATCACCAGAGGGAAGGGCATCGTGGACTCGCTCTTCCAGGCGCCCACGGGCGACGG CACCCACGAGGCCGTCCTCAGCTCCTACGAGTACGTCAGCCAGGGCCTGCGGAAGTACGA CTTCGACAACACCATGGGAGGCTTCTACATCGCTCCTGCTTTCATGGACAAGCTTGTTGT CCATCTCTCCAAAAACTTCATGACCCTGCCCAACATCAAGATCCCACTCATCTTGGGTAT CTGGGGAGGCAAGGGTCAAGGAAAATCATTCCAGTGTGAGCTTGTGTTCGCCAAGATGGG CATCAACCCCATCATGATGAGTGCCGGAGAGCTGGAGAGTGGGAACGCTGGAGAGCCAGC CAAGCTCATCAGGCAGCGGTACCGTGAGGCTGCAGACATGATCAAGAAGGGTAAGATGTG CTGCCTCTTCATCAACGATCTTGACGCTGGTGCGGGTAGGATGGGCGGAACCACGCAGTA CACCGTCAACAACCAGATGGTGAACGCCACCCTGATGAACATCGCCGATGCCCCCACCAA CGTGCAGCTCCCTGGCATGTACAACAAGGAGGAGAACCCCCGTGTGCCCATCGTCGTCAC CGGTAACGATTTCTCGACGCTCTACGCTCCTCTGATCCGTGATGGTCGTATGGAGAAGTT CTACTGGGCTCCCACCCGTGACGACCGTATCGGTGTCTGCAAGGGTATCTTCCAGACCGA CAATGTCAGTGACGAGTCTGTCGTCAAGATCGTCGACACCTTCCCAGGACAATCCATTGT ATCATGCATCGATCCGATACAGACTTTTTCGGTGCTCTGCGTGCTCGGGTGTACGACGAT GAGGTGCGCAAGTGGGTCGGCTCTACCGGAATCGAGAACATTGGCAAGAGGCTGGTGAAC TCGCGGGACGGGCCCGTGACCTTCGAGCAGCCAAAGATGACAGTCGAGAAGCTGCTAGAG TACGGGCACATGCTCGTCCAGGAGCAGGACAATGTCAAGCGTGTGCAGCTTGCTGACACC TACATGAGCCAGGCAGCTCTGGGTGATGCTAACCAGGATGCGATGAAGACTGGTTCCTTC TACGGTAAAGGAGCACAGCAAGGTACTTTGCCCGTGCCGGAAGGTTGCACCGACCAAAAT GCCAAGAACTACGACCCAACGGCAAGGAGCGACGACGGCAGCTGCCTTTACACCTTTTAA GCATGCCACTTTTAATATCTGATGTTTTACCTACCTAAGTCCGCATCGCATCCAAGCGAT TGCTGGGCATGTTTTGTTAATATATCTCTAAATATATTGAGTATACCCATTTGGCAAAGA CCAATACACCTACTTATCATTTGTCACTCTCAGTATTCATTCCTTCAGTGGAGACTCCTT CTGCTTTGTTGCAAACAGAACAAGAAAGTATTAATTTGAGCTTCAGCTTATTAATTATTA TTGCACAAACGCATGGAAACTGAGAGTCAATTGCGATCATGCGATACATACAGCGTGTAA TTTTAGCCCTGATGTTCCAACGTCCAAATTAGATCCCCAAAACTAAACGTCATTTAAGCT TAGAAAGACAAACAGAAAGGAG
Protein Sequence (325 aa)
>BART1_0-u27957.019 325 150831_barley_pseudomolecules MAAENIDEKRNTDKWKGLAYDISDDQQDITRGKGIVDSLFQAPTGDGTHEAVLSSYEYVS QGLRKYDFDNTMGGFYIAPAFMDKLVVHLSKNFMTLPNIKIPLILGIWGGKGQGKSFQCE LVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADMIKKGKMCCLFINDLDAGAGR MGGTTQYTVNNQMVNATLMNIADAPTNVQLPGMYNKEENPRVPIVVTGNDFSTLYAPLIR DGRMEKFYWAPTRDDRIGVCKGIFQTDNVSDESVVKIVDTFPGQSIVSCIDPIQTFSVLC VLGCTTMRCASGSALPESRTLARGW