- Transcript BART1_0-u26461.001
- Transcript IDBART1_0-u26461.001
- Gene IDBART1_0-u26461
Barley RTD
Exon Structure of BART1_0-u26461.001
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 13552422 | 13552313 | - |
| chr4H | 2 | 13553293 | 13552731 | - |
| chr4H | 3 | 13554330 | 13554251 | - |
| chr4H | 4 | 13554582 | 13554412 | - |
| chr4H | 5 | 13555708 | 13555595 | - |
| chr4H | 6 | 13556270 | 13556187 | - |
| chr4H | 7 | 13557718 | 13557579 | - |
| chr4H | 8 | 13560835 | 13559662 | - |
| chr4H | 9 | 13561167 | 13560935 | - |
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 | 0.370206 | 0.803748 | 2.51691 |
| morex | ETI | 5.21283 | 3.12409 | 4.8343 |
| morex | LEA | 3.31681 | 0.634862 | 0.0762441 |
| morex | EPI | 3.15744 | 2.59762 | 2.40492 |
| morex | ROO | 0.724092 | 1.12135 | 0.583655 |
| morex | ROO2 | 1.88163 | 1.25966 | 1.74513 |
| morex | NOD | 2.70791 | 2.99759 | 2.13378 |
| morex | RAC | 8.52912 | 8.72081 | 8.84919 |
| morex | INF1 | 6.12685 | 4.2491 | 4.88254 |
| morex | INF2 | 7.52341 | 9.90437 | 11.282 |
| morex | CAR5 | 3.08032 | 3.55192 | 4.48175 |
| morex | CAR15 | 0.265672 | 0 | 0.621973 |
| morex | LEM | 6.17515 | 4.51255 | 5.89483 |
| morex | LOD | 6.22068 | 5.71422 | 4.63751 |
| morex | PAL | 6.75917 | 8.28521 | 8.63771 |
| morex | SEN | 1.18079 | 1.19307 | 1.25454 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g29210.1 | +3 | 3e-81 | 267 | 152/293 (52%) | protein|ankyrin, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g23634.1.p | +3 | 1e-87 | 285 | 156/296 (53%) | pacid=32774779 transcript=Bradi2g23634.1 locus=Bradi2g23634 ID=Bradi2g23634.1.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 (2669 bp)
>BART1_0-u26461.001 2669 150831_barley_pseudomolecules AAAGCTCCAAGCCCCTTCTCCACCCCCACCCTAGCACATCCTCCTCGACCGACGCCATGG TGTCGCCCTACCGAGCTCATTCCGAAGGTAAGCGCCTCTCCCCACATCCCATCCCTAACC CTACCCCCAACCCGGATCCTGACTCCGCCCCCTCCGGCCCGCCCCAGTCCACGACCCGAT GCTGGACATGGTCTTCCAGGCGGCATCCGACAACGACCTCCCCCGCTTAAAGTCGCTGGT CGTGATGCTGGACTTGGGCAGGGGCCGCCCCAAGAAGGTGATTGAGGACTTGAGGGTGGA AGACGATCCCAAGCTTGAAGGTTTCAGCGCGCTGCACATCGCGGCCAGGGGGAGCCTGGA GGTGTGCAGGTACCTCGTCGAGGAGCTGCTGGTGGATGTGGATCTGGTCGACAAGGAAGG TCCAACTATCTTCAAAACCCTAATCTTTCGGTGCAGGCTTCGTCGAATTGCATGGAGTGC CTATTTTACATGCTGGAATTTGTTGTTCGCTAGGGCTGCTTCATCTGTAGGTCAGGTCTC ACGATATCCGACTGTTTTGTGCTTTCTCTGGGTTTGGCATAGAGGTGCATTATGAGAGCC AGCTTTTGCCATGGCTCCAGGCTCAGCGCAACACAGTCCGGCAACCATAAACATAGCCTA AGATCATCTACGTCAGTATGAACCAATGTATCATAGGCACCAATATTTTTCTCACCAAAT AAAATCATGTTTTGTCATATCCTGTTGTGCTAACTCATGATCATGCAGCTTTATACGGAA AAAGTCGGCCTTTTTAAGGAAGAAATAAGTCGGTCTTCATTATGATACTGAATGTGAATA CCCTACATAAGCACCGTTCATATAAATAATTAAATAGGCTACTCTTTGAGGGCAAATTAA TGTTTATTTTAGGATAGTTTGGTTGTTTAGTTATTGCACACATGTATGCACCCCAGCTCT GAGGATGTATTTGATTCTTCTATTCGGGTAGTCGAATGTCTAATTTTCATGCGTCAGTTC CATTTAACCAATACTCTCTCGAGCATTATGAAAATCCTGCGTCATATCGTATCTAACTCG ATGGGTCTACTTTGTTTGTCTTGGGGAGCCATATCTAAATTCTATGCTCTCAGAGAAGAC AGGGCAGTGTTAGGAAACTTCTGTGGTGGTATTCTTTTGGAGATAAGACATGCTTTGATA CAAAAAAGATCTCATTTCTTGCTACGCTGAGAAGTGCTTTGATATAATTTCATTTTTGTG TGTTTGTTTGCTTTATAGGTAGAACACCTCTGTTTTTTGCAACATACTGCAATGGGGGTA CTGCTGAGTATCTTCTTGATCATGGAGCTAATCCAGACAAAGCCGATAACAATGGGGGTT TCCTGTTACATTATGCTGCTGAAATAGGTAGTTGTGAAATGGTAGAGCTTTTGCTTGCAA AAGGAGCTTACGTTGACCCGGTATGTGCTCGTGGAACACCACTTCATATTGCTGCTGGTG GAGGGCAGTATGGTGCTATGAAGATTTTATTGGACCACAGTGCAGATTACAACAAGATGG TAGATGGTGTGACACCTCTTATGGCTGCTAAAGATGCCAACTCAACGGAATGTATCAAGC TCCTAGTTAAGGTTCAGAAGGAGCCTATGCTTAAACGAGAAATCACGGCATCAGAGCTTA TATCACTAGGGAGTATCTCTTTAAAGAAAAAAGATTATGTTGTCGCAGCAAAATTGTACA GTCAGGCAATGCAGCTTGATCCTGGTGATGCAGTCTTGCTCTCAGACAGGAGCCTTTGTT GGCTTCACATGGGATATGGAAGAAAGGCTTTGCTAGATGCTAATCAATGCAGAAAAATGC GGCCTCTCTGGCCAAAAGCTTGTCGCCGGCAGGGTGAAGCTCTGATGCTACTGAAGGACT ATGAGGGTGCAAGTGAACGGTTCTTGGATGGACTCAAATTGGACCCAGTGGACACTGCTA TCGAGGATGCATTACGGGAAGCTATGAAGTCCTTGATGACGTCTCGGAGCACGAAAGCCA ATTGACTATTTGCGTGTCGCAGGGAAATCAGCTGAAGACTTGAAACGGGTCAGGAGTTTC TCCATTTTGCGCAAAGACCGATTTCCTTTAGAAAGTAAAGCGACGTGTCTCATGGCCTGA TGAGAGTGTATTACCGTCGGCATGTTTTGTATGAGCATGACTGTTGATGCTTGCAGTAGT ACCCCGCGGAAACTCGTCAGTTGCCATCTATCTGTCGTGTATTACAGGCTCTTATGTCAG GTATTTGGGTCTTCTGAAGCTCACTCGTCTGCCGCTCCTGGTGCAGCGTCCCCGAATGAT CGCAGCCTCTGCATTTGTCTTGTTGCGGTTTTGCTGAATTGCCTCCTGGCTCTGTAGTGT TTTAACTACTCAACGATGGTACAATGTAGTGAAGATGGAGATATCTTGTGTAGGTTTTCT TCGTCCTGTGGGTGCATAATTAGAGGAGCGTGATGTAGGCTAAGTTTTGGTAGCTGCTAT CCCGTCTTGTTTTCCTGACTTCAGCTGGTTGCTGTGTGGGCTCAATGGCATTAGGGCTCG AGCCCTGGTGACTTTCTGATATTGTGTCATGTGGCATATTTTTATTTGTTTTTCCCCAGA AAATAATAATTCTGTTATTTTAAAATAGC
Protein Sequence (208 aa)
>BART1_0-u26461.001 208 150831_barley_pseudomolecules MVELLLAKGAYVDPVCARGTPLHIAAGGGQYGAMKILLDHSADYNKMVDGVTPLMAAKDA NSTECIKLLVKVQKEPMLKREITASELISLGSISLKKKDYVVAAKLYSQAMQLDPGDAVL LSDRSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEALMLLKDYEGASERFLDGLK LDPVDTAIEDALREAMKSLMTSRSTKAN