- Transcript BART1_0-u19873.003
- Transcript IDBART1_0-u19873.003
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303663 | 216303298 | + |
| chr3H | 2 | 216303945 | 216303843 | + |
| chr3H | 3 | 216304786 | 216304557 | + |
| chr3H | 4 | 216306264 | 216306038 | + |
| chr3H | 5 | 216306952 | 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 | 0 | 1.49011 | 0.0000218441 |
| morex | ETI | 0 | 0.00000210015 | 0.761585 |
| morex | LEA | 1.50937 | 0 | 0 |
| morex | EPI | 0 | 0.486918 | 0.142905 |
| morex | ROO | 0 | 0.0135648 | 0 |
| morex | ROO2 | 2.24877 | 0.00000737048 | 0.00013268 |
| morex | NOD | 0.621075 | 0.0000765216 | 2.02842 |
| morex | RAC | 3.48599 | 0.00000000754849 | 0.00000212102 |
| morex | INF1 | 0 | 0.805066 | 2.01804 |
| morex | INF2 | 1.56439 | 0 | 0.921234 |
| morex | CAR5 | 0.136056 | 0.488847 | 0 |
| morex | CAR15 | 0 | 0.896527 | 0.688198 |
| morex | LEM | 0.00388198 | 1.2754 | 0.000000900843 |
| morex | LOD | 0.0334431 | 3.85109 | 0.000401143 |
| morex | PAL | 3.13769 | 0.0000027318 | 0 |
| morex | SEN | 2.50657 | 0 | 1.02806 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +3 | 4e-78 | 241 | 118/132 (89%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+3 | 7e-51 | 157 | 70/107 (65%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +3 | 5e-83 | 216 | 115/124 (93%) | 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 (1432 bp)
>BART1_0-u19873.003 1432 150831_barley_pseudomolecules TGTCTGTGATGTTAAATGCGGAGTAGGATTCGTCCGCAACGGGTGCCGAGCAAATGCCCG CCGAGACGGCATGGCCCACATATAAACGTGCCTAGGCGTGCTGTGCTGTCATGTTTAAGC GTGGGCTGGGCCGTACTGTGCCAGCCCACTTGGCTAGGTTTGGCTGCATCGCCATGGTGG CTGAGGGAAAAACTTGGGCGAGCACCGACAGTTCCGCCGCGAATCTCAAAGCGCTGCGGC GGTTTCTCAAGGTGAGCTTCCTCGGAACGTGTTACGTGTTCTCCGGTTCTTCCCCGAGCT AAGCTCGACCTCGCCCTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAA GCGCATCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCCGCGGAT AAGCACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGAGATGGTTGGA AAAGGAAGCTATGTTCCGCCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGAGGAT AGCGTTCCTGAGGTGGAGGAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCCTACA CAATGGTCTTCAGGCATCTGTGCTTGTTTTGATGATCCACAGAGCTGTATGCTACTTTCT GACCCGTGACTCCTTGAATTACAGAAGGAAAGATAAAAGGTTGTATTGGTGCGACTTGCC CCTGCTTTCTTTTTGGAAAAAATGCACAGTTCTTGGGATCTGGAACTCTCGCTGGATCAT GCACCACCCATTGCATGCTTTGGGGCCTTCTGACAAGTTTCTGCTGTCTGTGTACTGGGG GGCTTGTATTAGCAGTTCCAGGGTCTGCTGTTGCTTGTTATGCTTGTGGATACCGCCAAG CACTAAGAACGAAGTACAACCTTCCGGAAGCACCATGCGGCGATTTGACGACGCACTTAT TTTGCCATCTGTGTGCGATATGCCAAGAGTACAGGGAGATCCGCGAGAGATCAGACAGTA GCGCCTCTTCAGCTCCTGATGTTACTCCACCTCCTGTGCAGACAATGGATGACCTTTGAC TGAGTAGATGACGAGAACATATCCTGCCTGGCAAATCTTTGGTTGGCTTGACATGCCCTT GCCTGTAAGTATTTGTGTTACTGTGCACTGCTCCCACAGCTACGATGTCAGATTTTATGC AGCTGGTGTAAAGATAACCTGTAAACTAATGGACAGCGCGAGAAAATGTAACCCTTTTGT TGCACGATTATAGCATGTAACATTTTTTCTTCATACATGTAGAAATGAAATGGAAACAAA GAGTGTTCTCCTGGACATGAGTTTCTACTTTGGGTGCATATGCACCTGGATGAACAGTAA AATCGAAAACAATAGAATTTTCTTTGAAGTTATGAATTCTTTTACAATATAC
Protein Sequence ( aa)
>BART1_0-u19873.003 150831_barley_pseudomolecules