- Transcript BART1_0-u03305.003
- Transcript IDBART1_0-u03305.003
- Gene IDBART1_0-u03305
Barley RTD
Exon Structure of BART1_0-u03305.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 366830576 | 366830089 | - |
| chr1H | 2 | 366831202 | 366831022 | - |
| chr1H | 3 | 366831460 | 366831277 | - |
| chr1H | 4 | 366832334 | 366832002 | - |
| chr1H | 5 | 366832934 | 366832797 | - |
| chr1H | 6 | 366833686 | 366833557 | - |
| chr1H | 7 | 366834355 | 366833931 | - |
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 | 47.0411 | 34.6178 | 42.8929 |
| morex | ETI | 56.5303 | 28.2165 | 34.9169 |
| morex | LEA | 17.8709 | 27.8898 | 28.356 |
| morex | EPI | 18.1629 | 26.542 | 17.2694 |
| morex | ROO | 31.8123 | 7.0951 | 9.72048 |
| morex | ROO2 | 29.5445 | 27.4318 | 28.6988 |
| morex | NOD | 32.4629 | 42.5353 | 34.2937 |
| morex | RAC | 45.1019 | 40.0628 | 35.2088 |
| morex | INF1 | 7.90042 | 27.4249 | 37.6217 |
| morex | INF2 | 19.8915 | 22.1226 | 14.2144 |
| morex | CAR5 | 5.82342 | 3.03808 | 7.64254 |
| morex | CAR15 | 2.27598 | 4.77153 | 7.53747 |
| morex | LEM | 37.3578 | 34.342 | 35.1983 |
| morex | LOD | 12.0782 | 13.5116 | 10.8074 |
| morex | PAL | 53.5502 | 54.1828 | 48.2807 |
| morex | SEN | 17.9272 | 24.8303 | 26.5663 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os10g38950.1 | +1 | 0.0 | 726 | 343/363 (94%) | protein|CGMC_MAPKCMGC_2_ERK.14 - CGMC includes CDA, MAPK, GSK3, and CLKC kinases, expressed |
| TAIR PP10 | AT4G01370 @ ARAPORT AT4G01370.1 @ TAIR |
+1 | 0.0 | 639 | 295/356 (83%) | Symbols: ATMPK4, MPK4 | MAP kinase 4 | chr4:567219-568889 FORWARD LENGTH=376 |
| BRACH PP3 | Bradi3g32000.1.p | +1 | 0.0 | 750 | 359/363 (99%) | pacid=32819051 transcript=Bradi3g32000.1 locus=Bradi3g32000 ID=Bradi3g32000.1.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 (1879 bp)
>BART1_0-u03305.003 1879 150831_barley_pseudomolecules CGCATATCTATTTTTTCTTCTTCCTCTTTTCCGCAAACGTCGCCCCACGCGCGCCGTCTC CGTCCTCGCGTCCGCTCGCTCCCATCCTCATTCCCCAGTCGCCGCCCAAGTCAAAAAGAG GGGGAAGCATCTCCACCAGAGTCCCCAGCCCATCAACGACTAGTCGCTGCGGGGCACCAA CCCTAGAGCCCAACCCTACTCTCCCCCCCTCTCTGGCTCCTCCCCCTCGCGAGCGGCGAC GAAGAAGCCATGGACACCTCCGGCGGCGGCGGCGGCGCCGCGGGCGGGGCCGCGCAGATC CAGGGGATGGCGACGCACGGCGGCCGCTACGTGCTCTACAACGTCTACGGCAACCTCTTC GAGGTCGCCTCCAAGTACGCCCCTCCCATCCGCCCCATCGGCCGAGGCGCCTACGGCATT GTCTGCGCGGCTGTTAGCTCGGATACAGGAGAGGAGGTTGCGATCAAGAAGATTGGAAAT GCGTTTGACAACCACATCGACGCCAAACGGACGCTTAGAGAAATAAAGCTTCTTCGCCAC ATGGACCATGAGAATATTCTTGCCATGAAGGATTTAATACGCCCCCCAAGAAGAGATGAT TTTAAGGATGTGTACATTGTTACTGAGTTGATGGACACTGATCTCCATCAGATCATTCGC TCAAATCAATCATTGACTGATGACCATTGCCAGTACTTCTTGTATCAATTGCTTCGAGGG CTAAAATATGTGCACTCAGCAAATGTCTTGCACCGTGATCTGAAGCCAAGCAATTTGTTC CTAAACGCAAATTGCGATCTCAAGATTGCTGACTTTGGGCTTGCAAGGACCACTTCAGAA ACTGATCTCATGACAGAGTATGTGGTCACTCGTTGGTACCGAGCGCCAGAGTTGCTGTTG AACTGTTCACAATATACTGCTGCTATTGATGTCTGGTCAGTTGGGTGCATACTTGGTGAA ATTATTACTCGTCAACCCCTGTTTCCTGGAAGAGATTACATCCAACAGTTAAAGTTAATC ACCGAGCTGATAGGATCACCAGATGATTCAAGCCTGGGATTTCTTCGGAGTGATAATGCA CGAAGATACATGAAGCAATTACCACAGTACCCAAGGCAGGACTTCCGCCTGCGCTTCCGC AACATGTCTGATGGTGCAGTTGATCTGTTAGAGAGGATGCTGGTGTTTGACCCAAGCAGA CGCATTACTGTTGATGAGGCTCTGCATCACCCATACTTGGCTTCTCTTCATGACATCAAT GAAGAACCCACTTGCCCGGCACCTTTCAGCTTTGATTTTGAGCAACCATCTTTTACAGAA GAACATATGAAAGAGCTCATCTGGAGGGAAACTTTAGCATTTAACCCTGATCCGCCCTAC TAAGAGCCAAGATTGTTTCCAGGCATTCAAGTTAATTCATGTTGTTTTCCTTGGGAGCAC AGACCAAATTACCAGCTGAGGGCATTGAAGATCTACCTCTAGCTCTAGTGAAGCCGATAT TTCCATGTCTTGTGCATCTATTTATTTTATGCTCGCTTATTGGGCGAATGGGCATGGATT ATTTGTTGCTGTAACTATTTCTTTTGTGGCCTTTCTGAAGAAACGACATTTGTATGAGAT GGCTTGTATTATACCGGTTGATTGAATAAACTGGTCTTGTGTATCTAAAGCTTGTAATTT TGTGTACACTTATCTAAACATCCCATGTATATCTGAGTTAACATATTCCCTTTTATTATC TCAAGCATGTAATTTGGCATTTTGTGATCGGTCGTATCGAAGTTGCCGATATAATTTCGC TCTGAAATTCAGTTCACTGGTAGGTGTATCCCACATTAAAAGTTTGTACATGCTATTCTA TGTATTACTTACTCCGNNN
Protein Sequence (377 aa)
>BART1_0-u03305.003 377 150831_barley_pseudomolecules MDTSGGGGGAAGGAAQIQGMATHGGRYVLYNVYGNLFEVASKYAPPIRPIGRGAYGIVCA AVSSDTGEEVAIKKIGNAFDNHIDAKRTLREIKLLRHMDHENILAMKDLIRPPRRDDFKD VYIVTELMDTDLHQIIRSNQSLTDDHCQYFLYQLLRGLKYVHSANVLHRDLKPSNLFLNA NCDLKIADFGLARTTSETDLMTEYVVTRWYRAPELLLNCSQYTAAIDVWSVGCILGEIIT RQPLFPGRDYIQQLKLITELIGSPDDSSLGFLRSDNARRYMKQLPQYPRQDFRLRFRNMS DGAVDLLERMLVFDPSRRITVDEALHHPYLASLHDINEEPTCPAPFSFDFEQPSFTEEHM KELIWRETLAFNPDPPY