- Transcript BART1_0-u13191.021
- Transcript IDBART1_0-u13191.021
- Gene IDBART1_0-u13191
Barley RTD
Exon Structure of BART1_0-u13191.021
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 614355033 | 614354995 | + |
| chr2H | 2 | 614355353 | 614355226 | + |
| chr2H | 3 | 614355517 | 614355431 | + |
| chr2H | 4 | 614355844 | 614355736 | + |
| chr2H | 5 | 614356065 | 614355929 | + |
| chr2H | 6 | 614356910 | 614356806 | + |
| chr2H | 7 | 614357771 | 614357683 | + |
| chr2H | 8 | 614357971 | 614357869 | + |
| chr2H | 9 | 614358168 | 614358046 | + |
| chr2H | 10 | 614358861 | 614358722 | + |
| chr2H | 11 | 614359585 | 614359050 | + |
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 | 3.2462 | 0 | 0 |
| morex | ETI | 0.632865 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 6.84512 | 7.2541 | 4.43613 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.0000995631 | 1.0521 | 2.10554 |
| morex | NOD | 0 | 0.0817323 | 2.759 |
| morex | RAC | 1.39094 | 0.0327588 | 0.00000193992 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0.742589 | 0.894772 |
| morex | LOD | 1.1869 | 0.355771 | 0.0770047 |
| morex | PAL | 0 | 0.67497 | 1.45169 |
| morex | SEN | 0.338985 | 0.00119725 | 0.11268 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g41530.1 | +3 | 0.0 | 518 | 248/295 (84%) | protein|serine/threonine-protein kinase GCN2, putative, expressed |
| TAIR PP10 | AT3G59410 @ ARAPORT AT3G59410.1 @ TAIR |
+3 | 6e-101 | 330 | 177/332 (53%) | Symbols: GCN2 | protein kinase family protein | chr3:21950575-21959151 FORWARD LENGTH=1241 |
| BRACH PP3 | Bradi5g14307.1.p | +3 | 0.0 | 615 | 304/331 (92%) | pacid=32809296 transcript=Bradi5g14307.1 locus=Bradi5g14307 ID=Bradi5g14307.1.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 (1596 bp)
>BART1_0-u13191.021 1596 150831_barley_pseudomolecules GGAGGTTCTTCACCAATAACACAGGCCGAAGTTATCAAGCTTTGGACCTTGTGAGACGTT TTTACAATTCGAAGGCAATAGTTATTCGACTGAATCATAGCAAACTCGCTGAAGCAGTTT GTTCCTGGGCAGGAGTTCCTCAGGAACGAAGACAGAATGTTGCTGAGTTTCTATCTTCTA CTCTTGTTCAATATTGCCCAAACAAGGCGGATCGTAAGTCACAGTGGAGTTTCATTCGAG GGCAACTATTACAGGATCTTCGTCTTTCTGAAGAAGTTGTTGAAAAGCTACATAAAGCAG ATCAGCGGTTTTGTGGATCTGCAGATCTAGTACTTGCTAGATTAAGAGGGACCTTTTTCT ATGATAAATCTGCTTGCAAGGCTCTTGATGATCTCTCCACATTCCTTAAATGTTTGAGGG TATGGTCAGTTGAAGAACATATTGCTATTGATGTACTTATGCCTCCTTCAGACTATTACT ACTCAGATATGTTTTTTCAGATCTACTCAAAAGAAGGCAGTCCTGCGTCGAGTTCCCATG AAAAGTTGCTTGCTGTTGGCGGGCGATATGATATGTTGATGGAAAATGCTTGGGATAAGA CACATAAAACCAAACCCCCGGGTGCTGTTGGTGTGAGCATTGCACTTGAGAAATTCCTAC CTAATAATCCTTCATCTGACGTTGGGTTGCCAAGGATTGAAAATAGCATCAGTGTACTAG TCTGTTCAAAGGGCGGCGGCGGACTCTTAAACGAACGCATGGAACTTGTTGCAGAACTTT GGGAAGCTAACATAAAGGCCCAGTTTGTTCCTCAGGAAGACCCAAGTCTTCAAGAACAAT ACGAGTACGCCAGTGATCATGACATCAAATGCCTTGTGTTTATCACTGAAGCAGGTCTTG CGCAAACTGATCTTGTGAAGGTTAGACATCTCGATGCAAGAAAGGAGAAAGATGTTGAAA AGGAAGAAATTGTGAAGTTCCTGTCTGAAGCAATATCTTTACAGTTCAAAAATCCTACAA TCTGGAGCTGATTGGCAGTCTGCTCCTAAGTGAATTTCAGGTGAAAGCAGTGTTGCCTTG CCAAACATTTTCACCTACACCAAATTGCAGGGTGACTGGTGGCTTTGTTCAATCTTGGTT ATCCTGGAGCATTGGCCAAGATTGATGGCTTGGTGTAATCCTGATTGTCCTGGAGCAGTA TTGCGGTGAATGCAAGCTGACGGGTAGCTGTTTTAAGGCAATCTTGGCTGCTATTATGTG GATAGCTAGTTGGTGCAGAGTTACTTCTGCGATGTGATCATGGAGCTGGAATGCTGCACA ACGTTCTTGTTGATAGTGGAACGGCTGTGCTACAGGTTCACCCAGTTATGCCCTTTGCAA AAAAATTTGCTTCAAATTCTTCTACAAGGCAGTCTTTTGCATAGTTCAAATTGTTTACGA TCATGTACAGGCCAATTTTCCTTCTTTGATGCTCGTAGGAAATGCCCAGTTTTGCAACTG GCTTAGCTTGGAGAAGACAAGCCAATGCAGTTTTGCTACAATACCGGTCAAAGTAGAATG TATGTAATCTGTTATCTGTGCACAGTGCGAAAGAGC
Protein Sequence (342 aa)
>BART1_0-u13191.021 342 150831_barley_pseudomolecules RFFTNNTGRSYQALDLVRRFYNSKAIVIRLNHSKLAEAVCSWAGVPQERRQNVAEFLSST LVQYCPNKADRKSQWSFIRGQLLQDLRLSEEVVEKLHKADQRFCGSADLVLARLRGTFFY DKSACKALDDLSTFLKCLRVWSVEEHIAIDVLMPPSDYYYSDMFFQIYSKEGSPASSSHE KLLAVGGRYDMLMENAWDKTHKTKPPGAVGVSIALEKFLPNNPSSDVGLPRIENSISVLV CSKGGGGLLNERMELVAELWEANIKAQFVPQEDPSLQEQYEYASDHDIKCLVFITEAGLA QTDLVKVRHLDARKEKDVEKEEIVKFLSEAISLQFKNPTIWS