- Transcript BART1_0-u26508.010
- Transcript IDBART1_0-u26508.010
- Gene IDBART1_0-u26508
Barley RTD
Exon Structure of BART1_0-u26508.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 14992074 | 14991467 | - |
| chr4H | 2 | 14993415 | 14993166 | - |
| chr4H | 3 | 14993667 | 14993567 | - |
| chr4H | 4 | 14993855 | 14993772 | - |
| chr4H | 5 | 14994369 | 14994295 | - |
| chr4H | 6 | 14994589 | 14994515 | - |
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 | 14.9265 | 11.3469 | 13.0352 |
| morex | ETI | 26.5886 | 28.6693 | 27.5385 |
| morex | LEA | 10.149 | 7.91247 | 12.9492 |
| morex | EPI | 32.2119 | 44.6945 | 29.5411 |
| morex | ROO | 9.06654 | 9.06372 | 5.54675 |
| morex | ROO2 | 19.1615 | 19.2731 | 19.9649 |
| morex | NOD | 12.6622 | 21.6101 | 34.0146 |
| morex | RAC | 31.3102 | 31.2065 | 32.147 |
| morex | INF1 | 29.8514 | 37.3992 | 44.3353 |
| morex | INF2 | 39.216 | 34.1249 | 51.0886 |
| morex | CAR5 | 22.9926 | 22.7107 | 21.3146 |
| morex | CAR15 | 5.5372 | 4.0714 | 4.99175 |
| morex | LEM | 31.2933 | 28.2887 | 32.3026 |
| morex | LOD | 35.6999 | 41.2666 | 36.823 |
| morex | PAL | 35.9253 | 33.5889 | 27.1745 |
| morex | SEN | 37.1378 | 26.3056 | 25.7999 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g49520.1 | +1 | 8e-65 | 213 | 121/158 (77%) | protein|pinin/SDK/memA protein, putative, expressed |
| TAIR PP10 | AT1G15200 @ ARAPORT AT1G15200.4 @ TAIR |
+1 | 1e-58 | 197 | 120/269 (45%) | Symbols: | protein-protein interaction regulator family protein | chr1:5228477-5231017 REVERSE LENGTH=442 |
| BRACH PP3 | Bradi1g10810.1.p | +1 | 2e-71 | 230 | 131/158 (83%) | pacid=32798970 transcript=Bradi1g10810.1 locus=Bradi1g10810 ID=Bradi1g10810.1.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 (1193 bp)
>BART1_0-u26508.010 1193 150831_barley_pseudomolecules CAGAAATTTCAGCAAGAGAACAAAAAACTTTCCAACTCAGAGGCTTTTATGCGTAGATCA GAGGCTCAGCAGAAGGCACTATATGGAAGGCTCTAGGCTTGTATTACAGTAATGTCAATT AACTCAGGTGGCTTGCATTTGTTTTTTGAGGCTGATCAAAAGGCTCGTGAGGACAGTGAA AGATTGCGGCAGCAAGTGCGGGAGCAAGCAGCTGAGAAGCGTAGGCGTGATATGACGCTT CGTGCTCGAGTAGCTGCTAAGTCAGAAGAAAAGAGGTTGGAGCTATTGTACATTCAGTGG TCTGAGCATCACAAAAAGCTGTCCAGTTTCTTAAGGTTATTTTTATTCCTGGTCCAAAAG TATCCATATTGACAATTAAATTGAGGGAAGATGCGTTTCTGATTGTACGCAAATCTTGAT GTTTGATGTCTATAGGGGTTTCCATATCCACTCATTATACTATATGTTTGTTCCTTGTTT GATTCCATTTGTATTTTCAGGACAAAAGCTGAACCAGCTATTTATTACATGCCGGCTAAA CCAATAGTTGATGATCCGCTTATTGTTGAGCAAAACAAGGAAAAGGCATTTGAAGAATGG AAATCTGTGCGCAGAACGGAGCTCACACAGTTTCAAAAGCAAGTTGAGGAGCAGTATCTG TCTAACGTTGAGAGGCAGCTGGAAAGAATTCAGAATGCCCGGAATGCTCGGAGGGGGAAC GTGCCTGCTAACATGCAGGAAATGGACAAGGAGCTGGACACACACAGGGCGGAGCATGGC CCCAAGGCTCGGCGGATCCCCGACGGTGGCAACGACGAGGATGATGATGTGGACGTGGAC GACATGGCCGCGGAGGACGACCTGATGGATGAAGTGCTTGGCGTTAATGAGGCGATCAAC GAGGACCCGACCAAGCCATCTGAAGAGGCTACCGATGTTGCCCCTGTACCCGAGGAGGCA CAGTAGGCAAAGTTATTTGCAAGGTAGGCACTTACGCATTATGATTCTATATCGTTGTAG TTGCCCTCTTCTGTTGTGACTGTATTGTTGTTGGGTTTTTGTCTTTGGGAATGTTGTGAG CTGTGTTTGCTGTTGAGGCCATATCCATACTTTTCATTATTGTTATTGTCATTCGTACGT ACTCTGCGTCTGCTCTTTTACGATCAAGTGTCAACCTGCGAAAACAATCATCA
Protein Sequence (145 aa)
>BART1_0-u26508.010 145 150831_barley_pseudomolecules MPAKPIVDDPLIVEQNKEKAFEEWKSVRRTELTQFQKQVEEQYLSNVERQLERIQNARNA RRGNVPANMQEMDKELDTHRAEHGPKARRIPDGGNDEDDDVDVDDMAAEDDLMDEVLGVN EAINEDPTKPSEEATDVAPVPEEAQ