- Transcript BART1_0-u20322.143
- Transcript IDBART1_0-u20322.143
- Gene IDBART1_0-u20322
Barley RTD
Exon Structure of BART1_0-u20322.143
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 230454815 | 230454395 | + |
| chr3H | 2 | 230455710 | 230455544 | + |
| chr3H | 3 | 230456500 | 230456035 | + |
| chr3H | 4 | 230456754 | 230456614 | + |
| chr3H | 5 | 230457724 | 230457650 | + |
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 | 0.521755 | 4.3575 | 3.10435 |
| morex | ETI | 7.93569 | 4.94172 | 5.97393 |
| morex | LEA | 4.21594 | 3.91331 | 3.85171 |
| morex | EPI | 5.34398 | 4.6805 | 5.2578 |
| morex | ROO | 0.401302 | 2.49366 | 0.786718 |
| morex | ROO2 | 2.82001 | 3.19096 | 1.66792 |
| morex | NOD | 3.60859 | 6.05909 | 3.88405 |
| morex | RAC | 7.17172 | 8.25298 | 9.26684 |
| morex | INF1 | 9.15211 | 8.3237 | 9.49753 |
| morex | INF2 | 12.3163 | 11.8132 | 13.9066 |
| morex | CAR5 | 7.64931 | 6.47188 | 7.52982 |
| morex | CAR15 | 3.50206 | 2.86375 | 2.37787 |
| morex | LEM | 7.57636 | 9.02668 | 9.14666 |
| morex | LOD | 6.85032 | 6.16803 | 7.49446 |
| morex | PAL | 6.38893 | 6.7713 | 8.98391 |
| morex | SEN | 7.07055 | 6.79568 | 3.25372 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19480.1 | +3 | 4e-49 | 125 | 66/114 (58%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +3 | 7e-58 | 148 | 76/113 (67%) | pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (1270 bp)
>BART1_0-u20322.143 1270 150831_barley_pseudomolecules CGGAATTCCTTGTGAATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCT TGTGTGCCTATGTTGTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGA AGCACACCGGCGGCCTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGG AGAGCAGCAATGTGCTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGA ACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGG CCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGA TTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACA ATGCAGAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTA TGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACC TGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGAT ATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGA GAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGTGACGCCACAGCTATT GAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGT TTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCACTCGAGGAGGCGGCAG TGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATGC GTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGGAACCACTAGATTGTG ACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACCGGA GGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTCAGATTTTCACATGACTGATGCC CAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTAT GGAACATATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGTCTTT TGCAGCAAGTGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGA GGCCCTCGGG
Protein Sequence ( aa)
>BART1_0-u20322.143 150831_barley_pseudomolecules