- Transcript BART1_0-u03305.001
- Transcript IDBART1_0-u03305.001
- Gene IDBART1_0-u03305
Barley RTD
Exon Structure of BART1_0-u03305.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 366830525 | 366830088 | - |
| 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 | 11.4746 | 27.9697 | 21.2899 |
| morex | ETI | 62.0465 | 50.7901 | 61.5721 |
| morex | LEA | 25.1394 | 14.7317 | 37.8925 |
| morex | EPI | 39.6927 | 42.0517 | 41.545 |
| morex | ROO | 21.4237 | 31.1317 | 3.35525 |
| morex | ROO2 | 53.3872 | 61.9194 | 55.2985 |
| morex | NOD | 45.8884 | 82.6214 | 63.061 |
| morex | RAC | 36.337 | 36.127 | 43.0278 |
| morex | INF1 | 43.219 | 27.8682 | 9.18809 |
| morex | INF2 | 48.3966 | 28.1864 | 32.652 |
| morex | CAR5 | 34.0656 | 29.6431 | 33.2562 |
| morex | CAR15 | 15.1405 | 9.03502 | 13.4031 |
| morex | LEM | 57.6699 | 51.8273 | 48.5169 |
| morex | LOD | 16.5006 | 22.0061 | 12.0174 |
| morex | PAL | 62.1111 | 63.6409 | 74.0734 |
| morex | SEN | 37.9761 | 54.5977 | 54.245 |
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 | 727 | 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 | 751 | 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 (1829 bp)
>BART1_0-u03305.001 1829 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 TAAGAGCCAAGACCAAATTACCAGCTGAGGGCATTGAAGATCTACCTCTAGCTCTAGTGA AGCCGATATTTCCATGTCTTGTGCATCTATTTATTTTATGCTCGCTTATTGGGCGAATGG GCATGGATTATTTGTTGCTGTAACTATTTCTTTTGTGGCCTTTCTGAAGAAACGACATTT GTATGAGATGGCTTGTATTATACCGGTTGATTGAATAAACTGGTCTTGTGTATCTAAAGC TTGTAATTTTGTGTACACTTATCTAAACATCCCATGTATATCTGAGTTAACATATTCCCT TTTATTATCTCAAGCATGTAATTTGGCATTTTGTGATCGGTCGTATCGAAGTTGCCGATA TAATTTCGCTCTGAAATTCAGTTCACTGGTAGGTGTATCCCACATTAAAAGTTTGTACAT GCTATTCTATGTATTACTTACTCCGNNNN
Protein Sequence (377 aa)
>BART1_0-u03305.001 377 150831_barley_pseudomolecules MDTSGGGGGAAGGAAQIQGMATHGGRYVLYNVYGNLFEVASKYAPPIRPIGRGAYGIVCA AVSSDTGEEVAIKKIGNAFDNHIDAKRTLREIKLLRHMDHENILAMKDLIRPPRRDDFKD VYIVTELMDTDLHQIIRSNQSLTDDHCQYFLYQLLRGLKYVHSANVLHRDLKPSNLFLNA NCDLKIADFGLARTTSETDLMTEYVVTRWYRAPELLLNCSQYTAAIDVWSVGCILGEIIT RQPLFPGRDYIQQLKLITELIGSPDDSSLGFLRSDNARRYMKQLPQYPRQDFRLRFRNMS DGAVDLLERMLVFDPSRRITVDEALHHPYLASLHDINEEPTCPAPFSFDFEQPSFTEEHM KELIWRETLAFNPDPPY