- Transcript BART1_0-u12609.017
- Transcript IDBART1_0-u12609.017
- Gene IDBART1_0-u12609
Barley RTD
Exon Structure of BART1_0-u12609.017
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 560839298 | 560838400 | - |
| chr2H | 2 | 560840111 | 560839880 | - |
| chr2H | 3 | 560841423 | 560840973 | - |
| chr2H | 4 | 560841998 | 560841505 | - |
| chr2H | 5 | 560842352 | 560842111 | - |
| chr2H | 6 | 560844230 | 560844063 | - |
| chr2H | 7 | 560844497 | 560844336 | - |
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 | 1.02849 | 2.73939 | 2.31076 |
| morex | ETI | 1.67412 | 3.10111 | 1.51647 |
| morex | LEA | 1.54343 | 1.66599 | 1.71356 |
| morex | EPI | 1.83336 | 3.96554 | 3.03707 |
| morex | ROO | 0 | 0.942253 | 0.285916 |
| morex | ROO2 | 0.694023 | 1.76299 | 2.35803 |
| morex | NOD | 0.65393 | 1.30123 | 1.406 |
| morex | RAC | 2.32257 | 0.978408 | 1.70191 |
| morex | INF1 | 2.00672 | 2.1099 | 1.7893 |
| morex | INF2 | 1.55557 | 1.11034 | 0.977146 |
| morex | CAR5 | 0.347339 | 0.752913 | 0.624151 |
| morex | CAR15 | 0 | 0.161665 | 0.239837 |
| morex | LEM | 0.317512 | 0.162397 | 0.284709 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.146374 | 0.093696 | 0.190554 |
| morex | SEN | 2.01253 | 4.37503 | 2.30531 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g35470.1 | +3 | 0.0 | 411 | 234/361 (65%) | protein|calmodulin binding protein, putative, expressed |
| TAIR PP10 | AT5G57580 @ ARAPORT AT5G57580.1 @ TAIR |
+1 | 6e-163 | 338 | 185/245 (76%) | Symbols: | Calmodulin-binding protein | chr5:23314994-23317683 REVERSE LENGTH=647 |
| BRACH PP3 | Bradi3g46060.1.p | +3 | 0.0 | 408 | 236/360 (66%) | pacid=32814592 transcript=Bradi3g46060.1 locus=Bradi3g46060 ID=Bradi3g46060.1.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 (2648 bp)
>BART1_0-u12609.017 2648 150831_barley_pseudomolecules CACACATAGATCTCTCTCTCTCTCCCTCCATCTCTTGCTTTGCCTCTAGTCGTCGCCCAG TCGCTGCCGCACTGCTCCGGCTCGAGCTCGACGCGGGAAGGAGCAGCCCGGGCCTTCTCC AACCCTCGTGCCGCTATCGTTTGCCAGTTACTAGTTGCTAAGATCTGACCCACGGCGCCG GCAAGGTTGTGGCGCCGCGGAGATGCAGAGGCAGGGGCGCCACATGGAGCGGTCTGGCTC CAAGCGGGCGCTAGACCCTGGCGGCAGTGGCGGAGGCGGCGGCGACGACGAACGTGATCC TAAACGGCCGCGCGTCCCGGCCCTCGCCAGTGTCATTGTAGAAGCTCTCAAGTTGGACAG TTTGCAGAAGCTTTGTTCATCCCTGGAGCCGATTCTCCGAAGAGTTGTGAGTTAAAGAAC ATGCGACATCTTTTATTAACTTGTTAATATACTCATCTGGCTGCTTTTATGATCAGTCGA CACATGTTATTGCATTTGTAGGTCAGCGAAGAAGTAGAGCGTGCTTTAGCCAAATTGGGA CCTGCAGCAGCACCTGCTAGAATTGAAGGAAGGACCTCTCCCAAAAGAATTGAGGGCCCC AATGGTAGTAACCTCCAGCTTCAGTTTCGGAGTAGGTTAGCACTCCCACTCTTTACTGGA GGAAAAGTGGAAGGCGAGCAGGGAGCATCAATACATGTTGTGCTGTTAGATGCAAACACT GGACATGTCGTCACTTCAGGACCCCAGTCATCTGCGAAACTGGATGTTCTTGTTCTCGAG GGTGATTTTAATAAAGAGAAGGACGAGGATTGGACTGAAGAAGAATTTGAGAGCCACATT GTGAAAGAACGTGAAGGGAAGAGGCCTCTTTTAAACGGTGATATCCATGTGACACTTAAA GAAGGCGTAGGGACCATAGGAGAGCTTATCTTCACTGACAATTCCAGCTGGATAAGGAGC AGAAAATTCAGACTTGGGATGAGAGTCTCTTCAGGATTTTGTGACGGAGTTCGTATCAAA GAGGCGAAGACAGAGGCTTTTACTGTGAAAGATCACAGAGGAGAATTGTACAAGAAACAT TACCCTCCTGCGCTTAAGGATGATGTTTGGAGACTGGAAAAGATTGGAAAGGACGGTGCA TTCCACGGGAAACTAAACTCAAACGGAATCTATACAGTTGAACATTTTCTTCAACTTCTT GTTAAAGATCAACAGAAGTTAAGAAGTGTAAGTCGTACTATTTCTCGACTTTTGAGTTGT AAACCTTGCTAGTTCGTAGCAAAACATGAGCTTCTTCTATTGGCCTTTTGCAGATCCTTG GTACTGGCATGTCAAATAAGATGTGGGAAAGTCTTGTTGAACATGCAAAAACTTGTGTTC TGAGTGGCAAACATTATATATATTACTCGAAGGATACAGCAAGTGTTGGTGCAATATTCA ATAACATATATGAGTTCACTGGTTTGATTGCTGATGATCAGTTTATTTCAACGGAAAATC TTACTGAAAACCAGAGGGTGTTTGCGGATACGTTGGTGAAGCAAGCATACGATGATTGGA TCAATGTTGTAGAATATGATGGCAAGGGATTGTTGAAATTTAAGCAGAAAAAGAAATCTG TCACAACAAGAAGTGATGTTGCAAATGTCTCTACAAGCTACACTTCTTATGATTCAGCGC ACTCTCAGAAACAATTGGCACGAGGACATGCCAATATTGAGCGATCTCTCATGAGCAGTA CGACTAAAGTTCTTTTGTTCTGTTCAGCAGACGAGACAAGAATTGCATCCAACGGGAATC AAGTAGCAATATATGAAGCCAATCCTCAGGACATTTCACCAAGTATTACCATGCAATATG GCATGAGTTCATTGATCCCTGAAGGCCAGTTCAATGGCTCTTCCATCCAAACTCAAGCAT CAAGAAGCTCCAACATGCTAGCATTTGGACCTCCACCACAGCAGCCGCATAACTTCGAAT TCTCAGCATTTGGTCTGTCCATGCAATCCCCAGCTCCTAATCCTTTTGATGACTGGCCTG GACGGTTGCAGGAGAACCGCGGTGGTGTTGATGACTGTCTGATGGAGGAGATAAGAGGGA GAAGCCATGACATGCTGGAGAATGAAGAAGAGATGCAACATATGCTGCGCATTCTTAGCG GCGGGGCAGCAGCAAACATGAATAATGTAGGTGGCTTTCCCTCCTACCCTTCTCCTGTAC CGGACTTCAACTTCGTGGATGATCGTGCTCCCTCATCCGGTAAGGCTGTTGTTGGGTGGC TTAAGATTAAGGCTGCCATGCGGTGGGGCATCTTCGTCAGGAAGAAAGCAGCTGAGAGAA GAGCTCAGCTTGTTGAGCTGGATGACTAGGGGATACGGATGTTGGTAAGACACTTGTTTT TCTCGTCTTGTATAATTGCTTTGTTGACGCAATTATAGTCAGGATCTCAAGCTCCAAAAG TATGAATGGACTCACGTTGGTTGTATAGGTAGCTGTTTGATGGTCATTATCTAAGTTTTG TTGGTGTTCAGAAAAACAAAACTGCTACAACATTGGCCTCTACTGTGCAAACTTATTTGT TGGAGATTGGACACTTGAAACAGGCTTTTTTTATGGGAACTAGCAGGTGATCTGCTTTTG CATTAAAT
Protein Sequence (346 aa)
>BART1_0-u12609.017 346 150831_barley_pseudomolecules MSNKMWESLVEHAKTCVLSGKHYIYYSKDTASVGAIFNNIYEFTGLIADDQFISTENLTE NQRVFADTLVKQAYDDWINVVEYDGKGLLKFKQKKKSVTTRSDVANVSTSYTSYDSAHSQ KQLARGHANIERSLMSSTTKVLLFCSADETRIASNGNQVAIYEANPQDISPSITMQYGMS SLIPEGQFNGSSIQTQASRSSNMLAFGPPPQQPHNFEFSAFGLSMQSPAPNPFDDWPGRL QENRGGVDDCLMEEIRGRSHDMLENEEEMQHMLRILSGGAAANMNNVGGFPSYPSPVPDF NFVDDRAPSSGKAVVGWLKIKAAMRWGIFVRKKAAERRAQLVELDD