- Transcript BART1_0-u26461.018
- Transcript IDBART1_0-u26461.018
- Gene IDBART1_0-u26461
Barley RTD
Exon Structure of BART1_0-u26461.018
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 13555702 | 13555593 | - |
| chr4H | 2 | 13556062 | 13555928 | - |
| chr4H | 3 | 13556270 | 13556187 | - |
| chr4H | 4 | 13557718 | 13557579 | - |
| chr4H | 5 | 13559790 | 13559662 | - |
| chr4H | 6 | 13561193 | 13561081 | - |
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 | 2.32953 | 2.82716 | 3.91708 |
| morex | ETI | 0 | 0.695782 | 0 |
| morex | LEA | 1.14647 | 0.889226 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0.351757 | 1.49357 | 1.97265 |
| morex | ROO2 | 0 | 0.140984 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0.26996 | 0.0210592 |
| morex | INF1 | 10.7935 | 9.18247 | 8.82212 |
| morex | INF2 | 10.6391 | 8.24885 | 8.68962 |
| morex | CAR5 | 0.906395 | 0 | 0 |
| morex | CAR15 | 0 | 0.176566 | 0 |
| morex | LEM | 0 | 0.212048 | 0 |
| morex | LOD | 0.299833 | 0 | 0.22793 |
| morex | PAL | 0 | 0.338111 | 0.489449 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g29190.1 | +2 | 2e-42 | 148 | 93/202 (46%) | protein|ankyrin, putative, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi2g23634.1.p | +2 | 7e-45 | 155 | 92/200 (46%) | pacid=32774779 transcript=Bradi2g23634.1 locus=Bradi2g23634 ID=Bradi2g23634.1.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 (711 bp)
>BART1_0-u26461.018 711 150831_barley_pseudomolecules CTTCCTCGCTGCTCTTTTCTCCATTCAAAGCTCCAAGCCCCTTCTCCACCCCCACCCTAG CACATCCTCCTCGACCGACGCCATGGTGTCGCCCTACCGAGCTCATTCCGAAGGTAGAAC ACCTCTGTTTTTTGCAACATACTGCAATGGGGGTACTGCTGAGTATCTTCTTGATCATGG AGCTAATCCAGACAAAGCCGATAACAATGGGGGTTTCCTGTTACATTATGCTGCTGAAAT AGGTAGTTGTGAAATGGTAGAGCTTTTGCTTGCAAAAGGAGCTTACGTTGACCCGGTATG TGCTCGTGGAACACCACTTCATATTGCTGCTGGTGGAGGGCAGTATGGTGCTATGAAGAT TTTATTGGACCACAGTGCAGATTACAACAAGATGGTAGATGGTGTGACACCTCTTATGGC TGCTAAAGATGCCAACTCAACGGAATGTATCAAGCTCCTAGTTAAGCTGTGGCATCCTGC AATTTGTGACCCCTTGTACCGGACACTTCCACAACCATTTAAAAAAAAACTTGTCGCATA TTGAGGCTGGGGAGGACTTCTGCATATGTGCCATGTTGATATTAATAGTTACCTCAACAT GAAGGAGCCTATGCTTAAACGAGAAATCACGGCATCAGAGCTTATATCACTAGGGAGTAT CTCTTTAAAGAAAAAAGATTATGTTGTCGCAGCAAAATTGTACAGTCAGGT
Protein Sequence (153 aa)
>BART1_0-u26461.018 153 150831_barley_pseudomolecules MVSPYRAHSEGRTPLFFATYCNGGTAEYLLDHGANPDKADNNGGFLLHYAAEIGSCEMVE LLLAKGAYVDPVCARGTPLHIAAGGGQYGAMKILLDHSADYNKMVDGVTPLMAAKDANST ECIKLLVKLWHPAICDPLYRTLPQPFKKKLVAY