- Transcript BART1_0-u26461.015
- Transcript IDBART1_0-u26461.015
- Gene IDBART1_0-u26461
Barley RTD
Exon Structure of BART1_0-u26461.015
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 13553293 | 13552741 | - |
| chr4H | 2 | 13554330 | 13554251 | - |
| chr4H | 3 | 13554582 | 13554412 | - |
| chr4H | 4 | 13555128 | 13555104 | - |
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 | 2.04996 | 0 |
| morex | ETI | 0 | 0 | 0.256259 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 1.83939 | 0.134131 | 3.52903 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0.343095 | 0.26028 | 0.0000000173053 |
| morex | NOD | 0 | 1.11393 | 0 |
| morex | RAC | 1.68139 | 0.00000000811143 | 0.525765 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.366139 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0.897867 | 3.27878 | 1.45008 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 1.7542 | 0.159164 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g42350.1 | +2 | 4e-39 | 142 | 69/105 (66%) | protein|ankyrin, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g23634.2.p | +2 | 1e-38 | 139 | 70/105 (67%) | pacid=32774780 transcript=Bradi2g23634.2 locus=Bradi2g23634 ID=Bradi2g23634.2.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (829 bp)
>BART1_0-u26461.015 829 150831_barley_pseudomolecules CTTGGTTCCTGGTACTTCTGCTCAGGCAATGCAGCTTGATCCTGGTGATGCAGTCTTGCT CTCAGACAGGAGCCTTTGTTGGCTTCACATGGGATATGGAAGAAAGGCTTTGCTAGATGC TAATCAATGCAGAAAAATGCGGCCTCTCTGGCCAAAAGCTTGTCGCCGGCAGGGTGAAGC TCTGATGCTACTGAAGGACTATGAGGGTGCAAGTGAACGGTTCTTGGATGGACTCAAATT GGACCCAGTGGACACTGCTATCGAGGATGCATTACGGGAAGCTATGAAGTCCTTGATGAC GTCTCGGAGCACGAAAGCCAATTGACTATTTGCGTGTCGCAGGGAAATCAGCTGAAGACT TGAAACGGGTCAGGAGTTTCTCCATTTTGCGCAAAGACCGATTTCCTTTAGAAAGTAAAG CGACGTGTCTCATGGCCTGATGAGAGTGTATTACCGTCGGCATGTTTTGTATGAGCATGA CTGTTGATGCTTGCAGTAGTACCCCGCGGAAACTCGTCAGTTGCCATCTATCTGTCGTGT ATTACAGGCTCTTATGTCAGGTATTTGGGTCTTCTGAAGCTCACTCGTCTGCCGCTCCTG GTGCAGCGTCCCCGAATGATCGCAGCCTCTGCATTTGTCTTGTTGCGGTTTTGCTGAATT GCCTCCTGGCTCTGTAGTGTTTTAACTACTCAACGATGGTACAATGTAGTGAAGATGGAG ATATCTTGTGTAGGTTTTCTTCGTCCTGTGGGTGCATAATTAGAGGAGCGTGATGTAGGC TAAGTTTTGGTAGCTGCTATCCCGTCTTGTTTTCCTGACTTCAGCTGGT
Protein Sequence (107 aa)
>BART1_0-u26461.015 107 150831_barley_pseudomolecules LVPGTSAQAMQLDPGDAVLLSDRSLCWLHMGYGRKALLDANQCRKMRPLWPKACRRQGEA LMLLKDYEGASERFLDGLKLDPVDTAIEDALREAMKSLMTSRSTKAN