- Transcript BART1_0-u03305.004
- Transcript IDBART1_0-u03305.004
- Gene IDBART1_0-u03305
Barley RTD
Exon Structure of BART1_0-u03305.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 366830576 | 366830092 | - |
| chr1H | 2 | 366831202 | 366831022 | - |
| chr1H | 3 | 366831460 | 366831277 | - |
| chr1H | 4 | 366832334 | 366832002 | - |
| chr1H | 5 | 366832934 | 366832797 | - |
| chr1H | 6 | 366833686 | 366833557 | - |
| chr1H | 7 | 366834318 | 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 | 0.0273059 | 0.913627 | 0.40293 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.00152722 | 0 | 0.0000506893 |
| morex | EPI | 0.000000000601244 | 0 | 0 |
| morex | ROO | 0.0120024 | 0.00100828 | 0.829539 |
| morex | ROO2 | 0 | 0 | 0.000000717644 |
| morex | NOD | 0.206313 | 0.0000000401874 | 0.0000364151 |
| morex | RAC | 0 | 0.00000000272921 | 0 |
| morex | INF1 | 0.0104398 | 0.143095 | 1.1118 |
| morex | INF2 | 0.000000293655 | 0.000216275 | 0.00219854 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.0673901 | 0 |
| morex | LEM | 0 | 0.000000027413 | 0.00000000329545 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.0000000901064 | 0 | 0 |
| morex | SEN | 0.00000000116232 | 0 | 0 |
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 | 677 | 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 | 701 | 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 (1788 bp)
>BART1_0-u03305.004 1788 150831_barley_pseudomolecules CGTCGCCCCACGCGCGCCGTCTCCGTCCTCGCGTCCGCTCGCTCCCATCCTCATTCCCCA GTCGCCGCCCAAGTCAAAAAGAGGGGGAAGCATCTCCACCAGAGTCCCCAGCCCATCAAC GACTAGTCGCTGCGGGGCACCAACCCTAGAGCCCAACCCTACTCTCCCCCCCTCTCTGGC TCCTCCCCCTCGCGAGCGGCGACGAAGAAGCCATGGACACCTCCGGCGGCGGCGGCGGCG CCGCGGGCGGGGCCGCGCAGATCCAGGGGATGGCGACGCACGGCGGCCGCTACGTGCTCT ACAACGTCTACGGCAACCTCTTCGAGGTCGCCTCCAACGCGGCTGTTAGCTCGGATACAG GAGAGGAGGTTGCGATCAAGAAGATTGGAAATGCGTTTGACAACCACATCGACGCCAAAC GGACGCTTAGAGAAATAAAGCTTCTTCGCCACATGGACCATGAGAATATTCTTGCCATGA AGGATTTAATACGCCCCCCAAGAAGAGATGATTTTAAGGATGTGTACATTGTTACTGAGT TGATGGACACTGATCTCCATCAGATCATTCGCTCAAATCAATCATTGACTGATGACCATT GCCAGTACTTCTTGTATCAATTGCTTCGAGGGCTAAAATATGTGCACTCAGCAAATGTCT TGCACCGTGATCTGAAGCCAAGCAATTTGTTCCTAAACGCAAATTGCGATCTCAAGATTG CTGACTTTGGGCTTGCAAGGACCACTTCAGAAACTGATCTCATGACAGAGTATGTGGTCA CTCGTTGGTACCGAGCGCCAGAGTTGCTGTTGAACTGTTCACAATATACTGCTGCTATTG ATGTCTGGTCAGTTGGGTGCATACTTGGTGAAATTATTACTCGTCAACCCCTGTTTCCTG GAAGAGATTACATCCAACAGTTAAAGTTAATCACCGAGCTGATAGGATCACCAGATGATT CAAGCCTGGGATTTCTTCGGAGTGATAATGCACGAAGATACATGAAGCAATTACCACAGT ACCCAAGGCAGGACTTCCGCCTGCGCTTCCGCAACATGTCTGATGGTGCAGTTGATCTGT TAGAGAGGATGCTGGTGTTTGACCCAAGCAGACGCATTACTGTTGATGAGGCTCTGCATC ACCCATACTTGGCTTCTCTTCATGACATCAATGAAGAACCCACTTGCCCGGCACCTTTCA GCTTTGATTTTGAGCAACCATCTTTTACAGAAGAACATATGAAAGAGCTCATCTGGAGGG AAACTTTAGCATTTAACCCTGATCCGCCCTACTAAGAGCCAAGATTGTTTCCAGGCATTC AAGTTAATTCATGTTGTTTTCCTTGGGAGCACAGACCAAATTACCAGCTGAGGGCATTGA AGATCTACCTCTAGCTCTAGTGAAGCCGATATTTCCATGTCTTGTGCATCTATTTATTTT ATGCTCGCTTATTGGGCGAATGGGCATGGATTATTTGTTGCTGTAACTATTTCTTTTGTG GCCTTTCTGAAGAAACGACATTTGTATGAGATGGCTTGTATTATACCGGTTGATTGAATA AACTGGTCTTGTGTATCTAAAGCTTGTAATTTTGTGTACACTTATCTAAACATCCCATGT ATATCTGAGTTAACATATTCCCTTTTATTATCTCAAGCATGTAATTTGGCATTTTGTGAT CGGTCGTATCGAAGTTGCCGATATAATTTCGCTCTGAAATTCAGTTCACTGGTAGGTGTA TCCCACATTAAAAGTTTGTACATGCTATTCTATGTATTACTTACTCCG
Protein Sequence (360 aa)
>BART1_0-u03305.004 360 150831_barley_pseudomolecules MDTSGGGGGAAGGAAQIQGMATHGGRYVLYNVYGNLFEVASNAAVSSDTGEEVAIKKIGN AFDNHIDAKRTLREIKLLRHMDHENILAMKDLIRPPRRDDFKDVYIVTELMDTDLHQIIR SNQSLTDDHCQYFLYQLLRGLKYVHSANVLHRDLKPSNLFLNANCDLKIADFGLARTTSE TDLMTEYVVTRWYRAPELLLNCSQYTAAIDVWSVGCILGEIITRQPLFPGRDYIQQLKLI TELIGSPDDSSLGFLRSDNARRYMKQLPQYPRQDFRLRFRNMSDGAVDLLERMLVFDPSR RITVDEALHHPYLASLHDINEEPTCPAPFSFDFEQPSFTEEHMKELIWRETLAFNPDPPY