- Transcript BART1_0-u03305.006
- Transcript IDBART1_0-u03305.006
- Gene IDBART1_0-u03305
Barley RTD
Exon Structure of BART1_0-u03305.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 366830565 | 366830093 | - |
| chr1H | 2 | 366831202 | 366831022 | - |
| chr1H | 3 | 366831460 | 366831277 | - |
| chr1H | 4 | 366832334 | 366832002 | - |
| chr1H | 5 | 366832934 | 366832797 | - |
| chr1H | 6 | 366833686 | 366833557 | - |
| chr1H | 7 | 366834324 | 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 | 2.97298 | 1.43077 | 9.67561 |
| morex | ETI | 2.91183 | 2.4925 | 3.26687 |
| morex | LEA | 4.83454 | 1.04158 | 1.79141 |
| morex | EPI | 0.124335 | 1.12296 | 2.09474 |
| morex | ROO | 0.395047 | 0.86494 | 1.83593 |
| morex | ROO2 | 1.91417 | 2.11875 | 0.945167 |
| morex | NOD | 1.69698 | 3.03879 | 1.81828 |
| morex | RAC | 3.43866 | 2.24164 | 2.50198 |
| morex | INF1 | 4.8795 | 1.21029 | 4.86776 |
| morex | INF2 | 0.715822 | 1.86902 | 2.80635 |
| morex | CAR5 | 1.71922 | 0.863294 | 0 |
| morex | CAR15 | 0.0000109421 | 0 | 1.54788 |
| morex | LEM | 2.60572 | 1.75926 | 3.52551 |
| morex | LOD | 0.319884 | 0.539197 | 0.215793 |
| morex | PAL | 3.21149 | 4.11231 | 4.21203 |
| morex | SEN | 0.82265 | 3.31516 | 0.0000000200328 |
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 | 728 | 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 |
+3 | 0.0 | 639 | 295/356 (83%) | Symbols: ATMPK4, MPK4 | MAP kinase 4 | chr4:567219-568889 FORWARD LENGTH=376 |
| BRACH PP3 | Bradi3g32000.1.p | +3 | 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 (1833 bp)
>BART1_0-u03305.006 1833 150831_barley_pseudomolecules CGCAAACGTCGCCCCACGCGCGCCGTCTCCGTCCTCGCGTCCGCTCGCTCCCATCCTCAT TCCCCAGTCGCCGCCCAAGTCAAAAAGAGGGGGAAGCATCTCCACCAGAGTCCCCAGCCC ATCAACGACTAGTCGCTGCGGGGCACCAACCCTAGAGCCCAACCCTACTCTCCCCCCCTC TCTGGCTCCTCCCCCTCGCGAGCGGCGACGAAGAAGCCATGGACACCTCCGGCGGCGGCG GCGGCGCCGCGGGCGGGGCCGCGCAGATCCAGGGGATGGCGACGCACGGCGGCCGCTACG TGCTCTACAACGTCTACGGCAACCTCTTCGAGGTCGCCTCCAAGTACGCCCCTCCCATCC GCCCCATCGGCCGAGGCGCCTACGGCATTGTCTGCGCGGCTGTTAGCTCGGATACAGGAG AGGAGGTTGCGATCAAGAAGATTGGAAATGCGTTTGACAACCACATCGACGCCAAACGGA CGCTTAGAGAAATAAAGCTTCTTCGCCACATGGACCATGAGAATATTCTTGCCATGAAGG ATTTAATACGCCCCCCAAGAAGAGATGATTTTAAGGATGTGTACATTGTTACTGAGTTGA TGGACACTGATCTCCATCAGATCATTCGCTCAAATCAATCATTGACTGATGACCATTGCC AGTACTTCTTGTATCAATTGCTTCGAGGGCTAAAATATGTGCACTCAGCAAATGTCTTGC ACCGTGATCTGAAGCCAAGCAATTTGTTCCTAAACGCAAATTGCGATCTCAAGATTGCTG ACTTTGGGCTTGCAAGGACCACTTCAGAAACTGATCTCATGACAGAGTATGTGGTCACTC GTTGGTACCGAGCGCCAGAGTTGCTGTTGAACTGTTCACAATATACTGCTGCTATTGATG TCTGGTCAGTTGGGTGCATACTTGGTGAAATTATTACTCGTCAACCCCTGTTTCCTGGAA GAGATTACATCCAACAGTTAAAGTTAATCACCGAGCTGATAGGATCACCAGATGATTCAA GCCTGGGATTTCTTCGGAGTGATAATGCACGAAGATACATGAAGCAATTACCACAGTACC CAAGGCAGGACTTCCGCCTGCGCTTCCGCAACATGTCTGATGGTGCAGTTGATCTGTTAG AGAGGATGCTGGTGTTTGACCCAAGCAGACGCATTACTGTTGATGAGGCTCTGCATCACC CATACTTGGCTTCTCTTCATGACATCAATGAAGAACCCACTTGCCCGGCACCTTTCAGCT TTGATTTTGAGCAACCATCTTTTACAGAAGAACATATGAAAGAGCTCATCTGGAGGGAAA CTTTAGCATTTAACCCTGATCCGCCCTACTAAGAGCCAAGGCATTCAAGTTAATTCATGT TGTTTTCCTTGGGAGCACAGACCAAATTACCAGCTGAGGGCATTGAAGATCTACCTCTAG CTCTAGTGAAGCCGATATTTCCATGTCTTGTGCATCTATTTATTTTATGCTCGCTTATTG GGCGAATGGGCATGGATTATTTGTTGCTGTAACTATTTCTTTTGTGGCCTTTCTGAAGAA ACGACATTTGTATGAGATGGCTTGTATTATACCGGTTGATTGAATAAACTGGTCTTGTGT ATCTAAAGCTTGTAATTTTGTGTACACTTATCTAAACATCCCATGTATATCTGAGTTAAC ATATTCCCTTTTATTATCTCAAGCATGTAATTTGGCATTTTGTGATCGGTCGTATCGAAG TTGCCGATATAATTTCGCTCTGAAATTCAGTTCACTGGTAGGTGTATCCCACATTAAAAG TTTGTACATGCTATTCTATGTATTACTTACTCC
Protein Sequence (377 aa)
>BART1_0-u03305.006 377 150831_barley_pseudomolecules MDTSGGGGGAAGGAAQIQGMATHGGRYVLYNVYGNLFEVASKYAPPIRPIGRGAYGIVCA AVSSDTGEEVAIKKIGNAFDNHIDAKRTLREIKLLRHMDHENILAMKDLIRPPRRDDFKD VYIVTELMDTDLHQIIRSNQSLTDDHCQYFLYQLLRGLKYVHSANVLHRDLKPSNLFLNA NCDLKIADFGLARTTSETDLMTEYVVTRWYRAPELLLNCSQYTAAIDVWSVGCILGEIIT RQPLFPGRDYIQQLKLITELIGSPDDSSLGFLRSDNARRYMKQLPQYPRQDFRLRFRNMS DGAVDLLERMLVFDPSRRITVDEALHHPYLASLHDINEEPTCPAPFSFDFEQPSFTEEHM KELIWRETLAFNPDPPY