- Transcript BART1_0-u19873.007
- Transcript IDBART1_0-u19873.007
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.007
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303663 | 216303436 | + |
| chr3H | 2 | 216303945 | 216303843 | + |
| chr3H | 3 | 216304816 | 216304557 | + |
| chr3H | 4 | 216306264 | 216306038 | + |
| chr3H | 5 | 216306903 | 216306447 | + |
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 | 1.8331 | 1.6952 | 7.09555 |
| morex | ETI | 2.31435 | 0.916954 | 0 |
| morex | LEA | 3.58117 | 0 | 0 |
| morex | EPI | 2.2314 | 3.64125 | 2.04717 |
| morex | ROO | 2.24542 | 0 | 0 |
| morex | ROO2 | 0 | 0.650084 | 0 |
| morex | NOD | 2.37321 | 3.84139 | 1.9538 |
| morex | RAC | 1.53791 | 0.653544 | 0.360812 |
| morex | INF1 | 1.77009 | 6.62788 | 4.52617 |
| morex | INF2 | 4.37056 | 0 | 1.5862 |
| morex | CAR5 | 1.67419 | 0.597986 | 1.09467 |
| morex | CAR15 | 0.31518 | 1.07724 | 0.734042 |
| morex | LEM | 4.65387 | 1.58064 | 2.10981 |
| morex | LOD | 0.733008 | 1.52211 | 3.0759 |
| morex | PAL | 1.83425 | 0.909106 | 1.01328 |
| morex | SEN | 1.51883 | 1.4118 | 0.646586 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +3 | 6e-76 | 234 | 118/142 (83%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+3 | 3e-51 | 159 | 72/113 (64%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +3 | 4e-83 | 216 | 116/131 (89%) | pacid=32778952 transcript=Bradi2g09980.1 locus=Bradi2g09980 ID=Bradi2g09980.1.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 (1275 bp)
>BART1_0-u19873.007 1275 150831_barley_pseudomolecules TGCCAGCCCACTTGGCTAGGTTTGGCTGCATCGCCATGGTGGCTGAGGGAAAAACTTGGG CGAGCACCGACAGTTCCGCCGCGAATCTCAAAGCGCTGCGGCGGTTTCTCAAGGTGAGCT TCCTCGGAACGTGTTACGTGTTCTCCGGTTCTTCCCCGAGCTAAGCTCGACCTCGCCCTC CCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAAGCGCATCTCGGGCATTCG GCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCCGCGGATAAGCACCAATTTGGTCGT CGGCGCTTCAGGGGTCTTTACCGATTTATTGAGATGGTTGGAAAAGGAAGCTATGTTCCG CCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGAGGATAGCGTTCCTGAGGTGGAG GAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCCTACACAATGGTCTTCAGGCATC TGTGCTTGTTTTGATGATCCACAGAGCTGTATGCTACTTTCTGACCCGTGACTCCTTGAA TTACAGAAGGAAAGATAAAAGGTGCTATTTGGTTGCATGATAGGATAAAAAGTTGTATTG GTGCGACTTGCCCCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATCTGGAACTC TCGCTGGATCATGCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTTCTGCTGTC TGTGTACTGGGGGGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTATGCTTGTG GATACCGCCAAGCACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGGCGATTTGA CGACGCACTTATTTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGATCCGCGAGA GATCAGACAGTAGCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCAGACAATGG ATGACCTTTGACTGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTTGGTTGGCT TGACATGCCCTTGCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGCTACGATGT CAGATTTTATGCAGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCGAGAAAATG TAACCCTTTTGTTGCACGATTATAGCATGTAACATTTTTTCTTCATACATGTAGAAATGA AATGGAAACAAAGAGTGTTCTCCTGGACATGAGTTTCTACTTTGGGTGCATATGCACCTG GATGAACAGTAAAAT
Protein Sequence ( aa)
>BART1_0-u19873.007 150831_barley_pseudomolecules