- Transcript BART1_0-u50476.001
- Transcript IDBART1_0-u50476.001
- Gene IDBART1_0-u50476
Barley RTD
Exon Structure of BART1_0-u50476.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 50932604 | 50931847 | - |
| chr7H | 2 | 50932782 | 50932689 | - |
| chr7H | 3 | 50932907 | 50932874 | - |
| chr7H | 4 | 50933974 | 50933808 | - |
| chr7H | 5 | 50934808 | 50934396 | - |
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 | 2.66725 | 1.98126 | 1.95247 |
| morex | ETI | 15.4198 | 36.3269 | 24.1547 |
| morex | LEA | 19.8261 | 35.4434 | 46.9593 |
| morex | EPI | 49.7298 | 42.8136 | 46.5007 |
| morex | ROO | 2.96918 | 2.72337 | 2.15352 |
| morex | ROO2 | 0.688143 | 0.576302 | 1.14697 |
| morex | NOD | 11.1104 | 8.17824 | 15.2184 |
| morex | RAC | 1.69664 | 1.93444 | 1.80508 |
| morex | INF1 | 3.422 | 3.35681 | 3.51589 |
| morex | INF2 | 3.97084 | 1.63385 | 4.5762 |
| morex | CAR5 | 4.87318 | 4.82438 | 6.11747 |
| morex | CAR15 | 1.80373 | 3.01306 | 2.75466 |
| morex | LEM | 10.5614 | 12.1693 | 10.1022 |
| morex | LOD | 5.62207 | 5.71543 | 7.43599 |
| morex | PAL | 5.26715 | 6.96917 | 6.34372 |
| morex | SEN | 44.6554 | 65.9517 | 58.4435 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os06g07760.1 | +2 | 9e-64 | 204 | 122/154 (79%) | protein|sulfiredoxin-1, putative, expressed |
| TAIR PP10 | AT1G31170 @ ARAPORT AT1G31170.2 @ TAIR |
+2 | 4e-47 | 159 | 72/88 (82%) | Symbols: ATSRX, SRX | sulfiredoxin | chr1:11133521-11134228 FORWARD LENGTH=125 |
| BRACH PP3 | Bradi1g47970.2.p | +2 | 2e-74 | 232 | 130/149 (87%) | pacid=32792060 transcript=Bradi1g47970.2 locus=Bradi1g47970 ID=Bradi1g47970.2.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 (1466 bp)
>BART1_0-u50476.001 1466 150831_barley_pseudomolecules CCGAACAAGGCCTTATGATAGACCTTCAGATTTGCGACGGTGTTGAACCCAATTAGGCAG AAATAAAATCACAGTTTGGATAATATACTGCCTTCAAATTTTGTTTTTTTAGGGGTTCAT GTACAGTGTTCGGCCCACTTTACACGTTTTGGAACTGCAAGGCCCATTAAATTCCTATGG TGCAGATCGATGCGACGCTCCGACACGTTAAGCAGAGCAGTAAACGGAAGCAGCAGCGGC AGCACGAGCGCGACCACGAATGGCGTCTACCTCGAGCTTGGATTTGGGAAAGATCGTGCC GCCGGCCGGCTTCCTCCTCCACCGCCGCACCGCCGTTCCCAGCGCCCCTGTTCTCCGGGG GAGGAGCACGAGCGGGCAGTGCGGCCTCGCTGTCTCGGCCTCGTCTTCCAATGGTGCAGC TGGCCTCTTCCCATTGAGCGACACGGAGAAGAAAGGCCCTGTGGTGATGGAGATCCCGCT GGAAGATATCCGTAGGCCGCTAATGCGAACGCGTGCTAACGATCCTGAGAAGGTGCAGGA GCTCATGGACAGCATCCGTGTCATCGGCCTCCAAGTACCTATCGACGTGCTGGAAGTCGA CGGAGTCTACTACGGATTCTCTGGATGCCATCGATACGAGGCTCACCAGCGCCTAGGACT CCCAACCATCCGCTGCAAAGTCCGCCGAGGGACCAAAGAAACACTGCGGCACCATATGCG ATGAATCGGTGGTTAGCGATGAATGGACAATCCATGGATTGCTTCAGCCAGGAAGTGTCG TCTGTTATGTCTAGTGCTAAAAAAAACTTTCTCCTCCTGTAATCATCTATACGTGTAAAT GTTACCCAATCCAATGTATAAAATAGCACAATTCAGCTGGCGCTTCTGCTCCTTCTGTTG CATACAGTAATCTCTACAGCTCTGCTTGGGCAAGAATTCAACTGAAGGTTCAGGCTGGAG TGCAGGGTCTAAACTCTCAGAAATGCAGTGCCCCCTGAAGCTTCATTAGCAAATTCAGGG CCATTCGGGGTGCGGTTTTTTCCTTCTCATATGCACTGTGAATTGACTGGTTACTGTGAA AGTTGCAATATCTGAAACTTTGAGATCGTCATCCTCAGAAAACAGTGCAGTCTCTCTATT CACTAGATTCTGAAGATAAAATGTTTTCAGAAGAGATACAAAATGAAGGAAGCAGTTCTA TGTTCCTGATAAGAGTGTAACTTGGCACCTGATCTGCCCCTACCCCGTGTTCAAACATAG AGCATCTCCTACATATGATGGATAAGTTGGTGCCCAAAAATAGTTTTATGACAGGAGAGA GAAGGTTTTTTACGTCATTGTGGCGGCTATTGCTCCATCAGGTGATGTAAGAGTAGTGGC CGAAATGGCCTTTTTTCTTCGTGGCTGCGTTTTTGCATATGCATCACCTGTTGGAGCGGT GTTTTTGGCACGTAATGATATAAAAG
Protein Sequence (154 aa)
>BART1_0-u50476.001 154 150831_barley_pseudomolecules MASTSSLDLGKIVPPAGFLLHRRTAVPSAPVLRGRSTSGQCGLAVSASSSNGAAGLFPLS DTEKKGPVVMEIPLEDIRRPLMRTRANDPEKVQELMDSIRVIGLQVPIDVLEVDGVYYGF SGCHRYEAHQRLGLPTIRCKVRRGTKETLRHHMR