- Transcript BART1_0-u03305.009
- Transcript IDBART1_0-u03305.009
- Gene IDBART1_0-u03305
Barley RTD
Exon Structure of BART1_0-u03305.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 366830525 | 366830156 | - |
| chr1H | 2 | 366831202 | 366831022 | - |
| chr1H | 3 | 366831460 | 366831277 | - |
| chr1H | 4 | 366832334 | 366832002 | - |
| chr1H | 5 | 366832934 | 366832797 | - |
| chr1H | 6 | 366833686 | 366833557 | - |
| chr1H | 7 | 366834324 | 366833982 | - |
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 | 0.215589 | 15.0924 | 11.3479 |
| morex | ETI | 0.0000413972 | 0.00000000195425 | 0.00000174013 |
| morex | LEA | 3.12382 | 0 | 0.320145 |
| morex | EPI | 0.043802 | 0.00000156327 | 0.175078 |
| morex | ROO | 0.325379 | 3.98417 | 2.08737 |
| morex | ROO2 | 0.000000037116 | 0.0000339395 | 1.84607 |
| morex | NOD | 3.87898 | 7.65364 | 0.945107 |
| morex | RAC | 0.00000459287 | 2.7672 | 0.00599572 |
| morex | INF1 | 12.2523 | 18.9554 | 16.9184 |
| morex | INF2 | 0.00307893 | 23.8352 | 10.8252 |
| morex | CAR5 | 0 | 0.0000160795 | 0.00000000240556 |
| morex | CAR15 | 0 | 1.26775 | 0.0000000323421 |
| morex | LEM | 0.00421827 | 1.35515 | 4.51999 |
| morex | LOD | 0.00000000115823 | 0.0000000140925 | 0.265075 |
| morex | PAL | 8.84042 | 0.0000338724 | 0.000000243767 |
| morex | SEN | 0.0131186 | 0.067002 | 0.00352684 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os10g38950.1 | +3 | 0.0 | 678 | 325/363 (90%) | protein|CGMC_MAPKCMGC_2_ERK.14 - CGMC includes CDA, MAPK, GSK3, and CLKC kinases, expressed |
| TAIR PP10 | AT4G01370 @ ARAPORT AT4G01370.1 @ TAIR |
+3 | 0.0 | 592 | 279/356 (78%) | Symbols: ATMPK4, MPK4 | MAP kinase 4 | chr4:567219-568889 FORWARD LENGTH=376 |
| BRACH PP3 | Bradi3g32000.1.p | +3 | 0.0 | 702 | 341/363 (94%) | 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 (1679 bp)
>BART1_0-u03305.009 1679 150831_barley_pseudomolecules CGCAAACGTCGCCCCACGCGCGCCGTCTCCGTCCTCGCGTCCGCTCGCTCCCATCCTCAT TCCCCAGTCGCCGCCCAAGTCAAAAAGAGGGGGAAGCATCTCCACCAGAGTCCCCAGCCC ATCAACGACTAGTCGCTGCGGGGCACCAACCCTAGAGCCCAACCCTACTCTCCCCCCCTC TCTGGCTCCTCCCCCTCGCGAGCGGCGACGAAGAAGCCATGGACACCTCCGGCGGCGGCG GCGGCGCCGCGGGCGGGGCCGCGCAGATCCAGGGGATGGCGACGCACGGCGGCCGCTACG TGCTCTACAACGTCTACGGCAACCTCTTCGAGGTCGCCTCCAACGCGGCTGTTAGCTCGG ATACAGGAGAGGAGGTTGCGATCAAGAAGATTGGAAATGCGTTTGACAACCACATCGACG CCAAACGGACGCTTAGAGAAATAAAGCTTCTTCGCCACATGGACCATGAGAATATTCTTG CCATGAAGGATTTAATACGCCCCCCAAGAAGAGATGATTTTAAGGATGTGTACATTGTTA CTGAGTTGATGGACACTGATCTCCATCAGATCATTCGCTCAAATCAATCATTGACTGATG ACCATTGCCAGTACTTCTTGTATCAATTGCTTCGAGGGCTAAAATATGTGCACTCAGCAA ATGTCTTGCACCGTGATCTGAAGCCAAGCAATTTGTTCCTAAACGCAAATTGCGATCTCA AGATTGCTGACTTTGGGCTTGCAAGGACCACTTCAGAAACTGATCTCATGACAGAGTATG TGGTCACTCGTTGGTACCGAGCGCCAGAGTTGCTGTTGAACTGTTCACAATATACTGCTG CTATTGATGTCTGGTCAGTTGGGTGCATACTTGGTGAAATTATTACTCGTCAACCCCTGT TTCCTGGAAGAGATTACATCCAACAGTTAAAGTTAATCACCGAGCTGATAGGATCACCAG ATGATTCAAGCCTGGGATTTCTTCGGAGTGATAATGCACGAAGATACATGAAGCAATTAC CACAGTACCCAAGGCAGGACTTCCGCCTGCGCTTCCGCAACATGTCTGATGGTGCAGTTG ATCTGTTAGAGAGGATGCTGGTGTTTGACCCAAGCAGACGCATTACTGTTGATGAGGCTC TGCATCACCCATACTTGGCTTCTCTTCATGACATCAATGAAGAACCCACTTGCCCGGCAC CTTTCAGCTTTGATTTTGAGCAACCATCTTTTACAGAAGAACATATGAAAGAGCTCATCT GGAGGGAAACTTTAGCATTTAACCCTGATCCGCCCTACTAAGAGCCAAGACCAAATTACC AGCTGAGGGCATTGAAGATCTACCTCTAGCTCTAGTGAAGCCGATATTTCCATGTCTTGT GCATCTATTTATTTTATGCTCGCTTATTGGGCGAATGGGCATGGATTATTTGTTGCTGTA ACTATTTCTTTTGTGGCCTTTCTGAAGAAACGACATTTGTATGAGATGGCTTGTATTATA CCGGTTGATTGAATAAACTGGTCTTGTGTATCTAAAGCTTGTAATTTTGTGTACACTTAT CTAAACATCCCATGTATATCTGAGTTAACATATTCCCTTTTATTATCTCAAGCATGTAAT TTGGCATTTTGTGATCGGTCGTATCGAAGTTGCCGATATAATTTCGCTCTGAAATTCAG
Protein Sequence (360 aa)
>BART1_0-u03305.009 360 150831_barley_pseudomolecules MDTSGGGGGAAGGAAQIQGMATHGGRYVLYNVYGNLFEVASNAAVSSDTGEEVAIKKIGN AFDNHIDAKRTLREIKLLRHMDHENILAMKDLIRPPRRDDFKDVYIVTELMDTDLHQIIR SNQSLTDDHCQYFLYQLLRGLKYVHSANVLHRDLKPSNLFLNANCDLKIADFGLARTTSE TDLMTEYVVTRWYRAPELLLNCSQYTAAIDVWSVGCILGEIITRQPLFPGRDYIQQLKLI TELIGSPDDSSLGFLRSDNARRYMKQLPQYPRQDFRLRFRNMSDGAVDLLERMLVFDPSR RITVDEALHHPYLASLHDINEEPTCPAPFSFDFEQPSFTEEHMKELIWRETLAFNPDPPY