- Transcript BART1_0-u11397.011
- Transcript IDBART1_0-u11397.011
- Gene IDBART1_0-u11397
Barley RTD
Exon Structure of BART1_0-u11397.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr2H | 1 | 405594558 | 405594399 | + |
| chr2H | 2 | 405594715 | 405594650 | + |
| chr2H | 3 | 405594910 | 405594845 | + |
| chr2H | 4 | 405597694 | 405596793 | + |
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 | 2.4723 | 0.533984 | 2.22398 |
| morex | ETI | 4.23325 | 3.30612 | 5.20686 |
| morex | LEA | 5.27061 | 7.91758 | 7.35335 |
| morex | EPI | 9.92686 | 11.0646 | 7.66867 |
| morex | ROO | 1.78121 | 0.649657 | 1.08574 |
| morex | ROO2 | 0.247512 | 0.524132 | 0 |
| morex | NOD | 1.90939 | 1.46114 | 1.52628 |
| morex | RAC | 0.324453 | 0.381856 | 0.108101 |
| morex | INF1 | 0.820817 | 1.16086 | 0.737816 |
| morex | INF2 | 1.43354 | 0.595227 | 1.30981 |
| morex | CAR5 | 1.87553 | 3.20427 | 1.75513 |
| morex | CAR15 | 1.62277 | 0.264359 | 1.52362 |
| morex | LEM | 0.369147 | 0.445782 | 0 |
| morex | LOD | 1.37341 | 0.525637 | 1.12164 |
| morex | PAL | 0 | 0.679151 | 0 |
| morex | SEN | 17.933 | 13.6746 | 12.8078 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os07g05010.1 | +2 | 5e-36 | 137 | 73/99 (74%) | protein|helix-loop-helix DNA-binding domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g58230.1.p | +2 | 2e-44 | 158 | 83/102 (81%) | pacid=32794195 transcript=Bradi1g58230.1 locus=Bradi1g58230 ID=Bradi1g58230.1.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 (1194 bp)
>BART1_0-u11397.011 1194 150831_barley_pseudomolecules CCAAGCGCTACTGTTCAAGAGGGGGAGGGACCAACTGGATAGCCGCCGAGAGGACGAACT GGATACCGACGACTGTGAGGCCGTCAATGAGACCCGGCCGCAGCGGCCGGCAGCGAAGCG CAGGACTCGTGCTGCCGAGGTCCATAACCAATCAGAGCGGAGAAGAAGGGATCGGATCAA CGAAAAGATGAAAGCATTGCAAGAACTCGTACCCCATTGCAACAAGAGCGACAAGGCGTC CATTCTAGACGAAGCAATCGAGTACTTGAAGTCTCTGCAACTGCAAGTTCAGGGGGGTTG GATACAGGAGGTCAGAGCAAACTAGTCATAGAAGAGAAGAGATATGGTACCAAGACACTC TGTGCTGTAAGGCCAGGGGCAGATCATGCAACATTGAGCCTTGGTGGCACCACTAAGCAA CCAACACGTATGGGCCCGAGATCATGCGGAATTGCGGATAGCAGATACTATTCTTATCCG AAGAATAGTCTTGAGCACCACCTTTCTATTTATGGAAGGATTTGGTCCATGGGAGATGAA CTTGGGGCTTTGACAGGGACAACAAAAGATGATTGTGCCGATATGCTGCAGATCTGGAGA TGACATTGTTGGAGCCAGGATCTGCACAATGACACAACTTGTGCACTTCTGCTCGTCTTT CCACCGATGTAACTCCACTCCACTGGTGAGTCCTAATGGGACTGTCCTGTTGACCCGCGG TCGAGCTATCGATATTCGAATGGACGGCTGAAACAAGGGTAGGCAGAAGAAACTTGTGCT TTTCGGACACAATTGTAGATCAGGTTTGCATATGCCTTTCAGAAATTCAGACAAGTGGTA CATGAAGATCATTCTCATTCGGCCATCAGGATCGCGAGATTATCGCCTTACCCTTAACCC TGGAAAGATTGTACCGCATGTGGTGATGTCCTGTTACAAGTTAATCAGGACTGTGATGGG CATCATCCGTTTCGTCACAGGGTAATTAGTCTCTGAAAATATCAATGATGCTGCATCTTT TGTTGTGTTATACTCCAATTGTGAGTCAGCTTCAGTCGCCGTCAGGGGAGACTGGGACTT TGCTTCGCATTTACACGTCCAGATTTGGTTGTCATGCTCGTATCATAGCGATTGATGTAG ATGCTTGGCAATTTGGAGGACAGATATTCATACCATGAAAAAAAAGAGGACAGA
Protein Sequence (138 aa)
>BART1_0-u11397.011 138 150831_barley_pseudomolecules MRMIFMYHLSEFLKGICKPDLQLCPKSTSFFCLPLFQPSIRISIARPRVNRTVPLGLTSG VELHRWKDEQKCTSCVIVQILAPTMSSPDLQHIGTIIFCCPCQSPKFISHGPNPSINRKV VLKTILRIRIVSAIRNSA