- Transcript BART1_0-u19873.010
- Transcript IDBART1_0-u19873.010
- Gene IDBART1_0-u19873
Barley RTD
Exon Structure of BART1_0-u19873.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 216303945 | 216303539 | + |
| chr3H | 2 | 216304831 | 216304557 | + |
| chr3H | 3 | 216306264 | 216306038 | + |
| chr3H | 4 | 216306867 | 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 | 0.754124 | 0.613109 | 1.41092 |
| morex | ETI | 3.56196 | 2.65402 | 2.36628 |
| morex | LEA | 2.55092 | 0.366824 | 0.815486 |
| morex | EPI | 1.8232 | 2.8478 | 0.426918 |
| morex | ROO | 0 | 2.11833 | 0 |
| morex | ROO2 | 0.505904 | 0.981839 | 1.02428 |
| morex | NOD | 1.59621 | 1.58525 | 3.54115 |
| morex | RAC | 2.98955 | 2.77375 | 5.02766 |
| morex | INF1 | 4.14606 | 4.3276 | 4.28359 |
| morex | INF2 | 8.25119 | 9.65109 | 6.65698 |
| morex | CAR5 | 5.79223 | 3.80514 | 5.8269 |
| morex | CAR15 | 4.02832 | 2.89657 | 6.22244 |
| morex | LEM | 3.24053 | 1.9261 | 2.06692 |
| morex | LOD | 1.63433 | 1.60381 | 2.80376 |
| morex | PAL | 2.05059 | 2.98832 | 2.52154 |
| morex | SEN | 2.43143 | 0.000000067597 | 0.291561 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os01g16210.1 | +1 | 4e-75 | 232 | 118/147 (80%) | protein|uncharacterized Cys-rich domain containing protein, putative, expressed |
| TAIR PP10 | AT2G40935 @ ARAPORT AT2G40935.1 @ TAIR |
+1 | 7e-51 | 157 | 70/107 (65%) | Symbols: | PLAC8 family protein | chr2:17083199-17084216 FORWARD LENGTH=190 |
| BRACH PP3 | Bradi2g09980.1.p | +1 | 4e-83 | 217 | 115/124 (93%) | pacid=32778952 transcript=Bradi2g09980.1 locus=Bradi2g09980 ID=Bradi2g09980.1.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 (1330 bp)
>BART1_0-u19873.010 1330 150831_barley_pseudomolecules GTTTCTCAAGGTGAGCTTCCTCGGAACGTGTTACGTGTTCTCCGGTTCTTCCCCGAGCTA AGCTCGACCTCGCCCTCCCGTCCATTCCTAACACGCACCGGATATCTCCTCCTGCCGAAG CGCATGTACGACGCCGGCAATACAGCCACCGGCTCCCCTCCCCTTCCCTCTTATCTGCCG CCCGAATATCCGACGGGTGGCATCCGACGCGATTTTCTTTTGTTGGCTTTTGCCCAAATC TCACCTCGTTCCTGGATCGGGTTTCTGCTTTCTTTCTTGATCAATTGAAATCTGGAATCC GCAGCTCGGGCATTCGGCGGACAGAGCGTTCCGGAACTGGTGAGGCGAGGCCGCGGATAA GCACCAATTTGGTCGTCGGCGCTTCAGGGGTCTTTACCGATTTATTGAGATGGTTGGAAA AGGAAGCTATGTTCCGCCGCAGTATGTTCCGTTATATGGTGTAGATACTGAGGAGGATAG CGTTCCTGAGGTGGAGGAGAACATTGCCACGCGCCAAAGATTAAGCAGGGATCCTACACA ATGGTCTTCAGGCATCTGTGCTTGTTTTGATGATCCACAGAGCTGTATGCTACTTTCTGA CCCGTGACTCCTTGAATTACAGAAGGAAAGATAAAAGGTGCTATTTGGTTGCATGATAGG ATAAAAAGTAAATCTTCAAACGGTTGTATTGGTGCGACTTGCCCCTGCTTTCTTTTTGGA AAAAATGCACAGTTCTTGGGATCTGGAACTCTCGCTGGATCATGCACCACCCATTGCATG CTTTGGGGCCTTCTGACAAGTTTCTGCTGTCTGTGTACTGGGGGGCTTGTATTAGCAGTT CCAGGGTCTGCTGTTGCTTGTTATGCTTGTGGATACCGCCAAGCACTAAGAACGAAGTAC AACCTTCCGGAAGCACCATGCGGCGATTTGACGACGCACTTATTTTGCCATCTGTGTGCG ATATGCCAAGAGTACAGGGAGATCCGCGAGAGATCAGACAGTAGCGCCTCTTCAGCTCCT GATGTTACTCCACCTCCTGTGCAGACAATGGATGACCTTTGACTGAGTAGATGACGAGAA CATATCCTGCCTGGCAAATCTTTGGTTGGCTTGACATGCCCTTGCCTGTAAGTATTTGTG TTACTGTGCACTGCTCCCACAGCTACGATGTCAGATTTTATGCAGCTGGTGTAAAGATAA CCTGTAAACTAATGGACAGCGCGAGAAAATGTAACCCTTTTGTTGCACGATTATAGCATG TAACATTTTTTCTTCATACATGTAGAAATGAAATGGAAACAAAGAGTGTTCTCCTGGACA TGAGTTTCTA
Protein Sequence ( aa)
>BART1_0-u19873.010 150831_barley_pseudomolecules