- Transcript BART1_0-u21397.002
- Transcript IDBART1_0-u21397.002
- Gene IDBART1_0-u21397
Barley RTD
Exon Structure of BART1_0-u21397.002
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 468069000 | 468068528 | - |
| chr3H | 2 | 468069718 | 468069597 | - |
| chr3H | 3 | 468070481 | 468070200 | - |
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 | 11.6911 | 9.88475 | 12.1492 |
| morex | ETI | 8.33561 | 6.90904 | 7.59079 |
| morex | LEA | 11.6345 | 5.58427 | 7.4151 |
| morex | EPI | 5.71314 | 6.76348 | 5.94919 |
| morex | ROO | 12.5859 | 8.98152 | 4.78302 |
| morex | ROO2 | 9.64758 | 8.94044 | 6.18587 |
| morex | NOD | 10.7808 | 9.63805 | 6.31082 |
| morex | RAC | 10.7711 | 13.7463 | 8.98044 |
| morex | INF1 | 16.1122 | 17.1417 | 19.6642 |
| morex | INF2 | 16.8089 | 15.8148 | 17.0106 |
| morex | CAR5 | 18.5362 | 20.0817 | 18.2564 |
| morex | CAR15 | 3.84396 | 2.35723 | 5.75492 |
| morex | LEM | 9.41107 | 5.86212 | 6.81104 |
| morex | LOD | 17.0588 | 15.2322 | 18.1007 |
| morex | PAL | 12.3767 | 11.1528 | 11.9682 |
| morex | SEN | 8.71984 | 6.61246 | 6.72998 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g21390.1 | +2 | 2e-33 | 119 | 59/66 (89%) | protein|expressed protein |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g20650.1.p | +2 | 1e-30 | 110 | 55/58 (95%) | pacid=32797822 transcript=Bradi1g20650.1 locus=Bradi1g20650 ID=Bradi1g20650.1.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 (877 bp)
>BART1_0-u21397.002 877 150831_barley_pseudomolecules GAACCGAGTTCCTAACTTCGAATCCTGTCTTCCTCCAATTTTTGTGAGGAATTAACCAGT TTCCTTTTGTTTCTTTTGCGGCTTCTGTGTTTCTTCCTGGGCCGGCCGGCCCACGAGGAG GGGCGCATAGGAGCTCCCGTTTCCGCGAGCCCGCACACGCGCGTGCAAAGTCTCGCATTT CCCCTGCTGCCCCCGACGCTCTCTTCCTCCTCTGGTGCGACACAGGTGGATCTCGCCGTC CCTGCTACGTCTTCGCCGCCGCATCTCGTCGCCGGTGCCAAGTTGAATCCTACCAGATCT TTATTCGTCGTTACCAATCTCAGTTACCCTGAAGCGATACTACTCCTAGCAGTTTATTTT CGACAAGAATTGGGCCCTTTGCATCGCGCTAGGCCTGCCCCTTGAGATGGGCTTGTGGAT GCTGCTGGAGGGTTTTTTGCTTCTTGCAAATTCTTTGGCCATCCTGAATGAAGACCGCTT TCTTGGTCCCAGGGGCTGGAGCATGCCTGAAGTTTCAGGAAATGGGCAAACAAAGTCCTT GAAGGGGCAGATCGTGGGGCTCATCTACGCCACTCAGTTTTTGCGGATGCCCTTGATAGC GCTTAATATTCTTATCATTGTTGTGAAATTGGTGTCAGGCTGAGGATCTTTGTCGCGTCA CTGCTGTTGGGTTGAACTGATTTCAGTTCCAGCATTATGTACAAGCTAATCATGTTCAGA AGTTGCTGGAAGGATGTTCATGCTGACATGAATGTGGCCTGTTGGTTTTGTTGCTGTAAA TCCCTCTGACTCTGAGGGTATCTTTCCTCCTGTATGACTTCTGATTCAGTATGCACTATT GCACTTACGATGTCTTGATCACCATGTAAATATTNNN
Protein Sequence ( aa)
>BART1_0-u21397.002 150831_barley_pseudomolecules