- Transcript BART1_0-u13191.022
- Transcript IDBART1_0-u13191.022
- Gene IDBART1_0-u13191
Barley RTD
Exon Structure of BART1_0-u13191.022
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 614356065 | 614355926 | + |
| chr2H | 2 | 614356910 | 614356806 | + |
| chr2H | 3 | 614357771 | 614357683 | + |
| chr2H | 4 | 614357971 | 614357869 | + |
| chr2H | 5 | 614358168 | 614358046 | + |
| chr2H | 6 | 614358861 | 614358722 | + |
| chr2H | 7 | 614359344 | 614359050 | + |
| chr2H | 8 | 614359761 | 614359468 | + |
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 | 0 | 0 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.368454 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.202461 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g41530.1 | +3 | 2e-107 | 325 | 153/187 (82%) | protein|serine/threonine-protein kinase GCN2, putative, expressed |
| TAIR PP10 | AT3G59410 @ ARAPORT AT3G59410.1 @ TAIR |
+3 | 7e-72 | 245 | 131/225 (58%) | Symbols: GCN2 | protein kinase family protein | chr3:21950575-21959151 FORWARD LENGTH=1241 |
| BRACH PP3 | Bradi5g14307.1.p | +3 | 2e-130 | 405 | 203/223 (91%) | 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 (1289 bp)
>BART1_0-u13191.022 1289 150831_barley_pseudomolecules TAGATAAATCTGCTTGCAAGGCTCTTGATGATCTCTCCACATTCCTTAAATGTTTGAGGG TATGGTCAGTTGAAGAACATATTGCTATTGATGTACTTATGCCTCCTTCAGACTATTACT ACTCAGATATGTTTTTTCAGATCTACTCAAAAGAAGGCAGTCCTGCGTCGAGTTCCCATG AAAAGTTGCTTGCTGTTGGCGGGCGATATGATATGTTGATGGAAAATGCTTGGGATAAGA CACATAAAACCAAACCCCCGGGTGCTGTTGGTGTGAGCATTGCACTTGAGAAATTCCTAC CTAATAATCCTTCATCTGACGTTGGGTTGCCAAGGATTGAAAATAGCATCAGTGTACTAG TCTGTTCAAAGGGCGGCGGCGGACTCTTAAACGAACGCATGGAACTTGTTGCAGAACTTT GGGAAGCTAACATAAAGGCCCAGTTTGTTCCTCAGGAAGACCCAAGTCTTCAAGAACAAT ACGAGTACGCCAGTGATCATGACATCAAATGCCTTGTGTTTATCACTGAAGCAGGTCTTG CGCAAACTGATCTTGTGAAGGTTAGACATCTCGATGCAAGAAAGGAGAAAGATGTTGAAA AGGAAGAAATTGTGAAGTTCCTGTCTGAAGCAATATCTTTACAGTTCAAAAATCCTACAA TCTGGAGCTGATTGGCAGTCTGCTCCTAAGTGAATTTCAGGTGAAAGCAGTGTTGCCTTG CCAAACATTTTCACCTACACCAAATTGCAGGGTGACTGGTGGCTTTGTTCAATCTTGGTT ATCCTGGAGCATTGGCCAAGATTGATGGCTTGGTGTAATCCTGATTGTCCTGGAGCAGTA TTGCGGTGAATGCAAGCTGACGGGTAGCTGTTTTAAGGCAATCTTGGCTGCTATTATGTG GATAGCTAGTTGGTGCAGAGTTACTTCTGCGATGTGATCATGGAGCTGGAATGCTGCACA ACGTTCTTGTTGATAGTGGAACGGCTGTGCTACAGGAAATGCCCAGTTTTGCAACTGGCT TAGCTTGGAGAAGACAAGCCAATGCAGTTTTGCTACAATACCGGTCAAAGTAGAATGTAT GTAATCTGTTATCTGTGCACAGTGCGAAAGAGCATCACTTGATTCAACTCCAGTGTTTCC GTCACTGTGCGAAGTACCAACCCAGCATGAGAGGCCGGCGTCGTGACGTTGACGTTACTC TTTGCGGTTGTCACCTCCCGTTTGAGCCCTTTGTCAAACTGAACACCGCATTGATTAGGT AAAGCTAGCCACTGCAAGGACCATTCCAG
Protein Sequence (222 aa)
>BART1_0-u13191.022 222 150831_barley_pseudomolecules DKSACKALDDLSTFLKCLRVWSVEEHIAIDVLMPPSDYYYSDMFFQIYSKEGSPASSSHE KLLAVGGRYDMLMENAWDKTHKTKPPGAVGVSIALEKFLPNNPSSDVGLPRIENSISVLV CSKGGGGLLNERMELVAELWEANIKAQFVPQEDPSLQEQYEYASDHDIKCLVFITEAGLA QTDLVKVRHLDARKEKDVEKEEIVKFLSEAISLQFKNPTIWS