- Transcript BART1_0-u27957.025
- Transcript IDBART1_0-u27957.025
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.025
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166877564 | - |
| chr4H | 2 | 166878412 | 166878081 | - |
| chr4H | 3 | 166878989 | 166878690 | - |
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 | 1.2339 | 0 | 0 |
| morex | ETI | 0.303888 | 1.80758 | 4.6865 |
| morex | LEA | 6.48388 | 13.0613 | 253.237 |
| morex | EPI | 6734.45 | 3831.52 | 5705.99 |
| morex | ROO | 1.04286 | 0.164764 | 0 |
| morex | ROO2 | 0.587419 | 2.30085 | 2.80747 |
| morex | NOD | 0.960694 | 56.9314 | 94.63 |
| morex | RAC | 33.0731 | 41.3484 | 39.9369 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0.290296 | 0.429024 |
| morex | CAR5 | 1.0012 | 0 | 0.596283 |
| morex | CAR15 | 0.375416 | 0 | 0.532916 |
| morex | LEM | 393.726 | 346.417 | 572.828 |
| morex | LOD | 1.72877 | 2.84124 | 0.123673 |
| morex | PAL | 139.521 | 165.247 | 160.668 |
| morex | SEN | 2750.06 | 3149.44 | 3172.51 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g47970.1 | +3 | 1e-99 | 302 | 163/254 (64%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.1 @ TAIR |
+3 | 3e-75 | 234 | 133/253 (53%) | Symbols: RCA | rubisco activase | chr2:16570951-16573345 REVERSE LENGTH=474 |
| BRACH PP3 | Bradi4g09125.1.p | +3 | 1e-108 | 323 | 172/254 (68%) | pacid=32783475 transcript=Bradi4g09125.1 locus=Bradi4g09125 ID=Bradi4g09125.1.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 (974 bp)
>BART1_0-u27957.025 974 150831_barley_pseudomolecules ACAGCCCCATCATGATGAGTGCCGGAGAGCTGGAGAGTGGGAACGCTGGAGAGCCAGCCA AGCTCATCAGGCAGCGGTACCGTGAGGCTGCAGACATGATCAAGAAGGGTAAGATGTGCT GCCTCTTCATCAACGATCTTGACGCTGGTGCGGGTAGGATGGGCGGAACCACGCAGTACA CCGTCAACAACCAGATGGTGAACGCCACCCTGATGAACATCGCCGATGCCCCCACCAACG TGCAGCTCCCTGGCATGTACAACAAGGAGGAGAACCCCCGTGTGCCCATCGTCGTCACCG ACTTTTTCGGTGCTCTGCGTGCTCGGGTGTACGACGATGAGGTGCGCAAGTGGGTCGGCT CTACCGGAATCGAGAACATTGGCAAGAGGCTGGTGAACTCGCGGGACGGGCCCGTGACCT TCGAGCAGCCAAAGATGACAGTCGAGAAGCTGCTAGAGTACGGGCACATGCTCGTCCAGG AGCAGGACAATGTCAAGCGTGTGCAGCTTGCTGACACCTACATGAGCCAGGCAGCTCTGG GTGATGCTAACCAGGATGCGATGAAGACTGGTTCCTTCTACGGTTAGAAAATTCTCCATA CACACCCACCATCTCTTGCTGCATAGGAGGAGGTAAAGGAGCACAGCAAGGTACTTTGCC CGTGCCGGAAGGTTGCACCGACCAAAATGCCAAGAACTACGACCCAACGGCAAGGAGCGA CGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTTTAATATCTGATGTTTTACCT ACCTAAGTCCGCATCGCATCCAAGCGATTGCTGGGCATGTTTTGTTAATATATCTCTAAA TATATTGAGTATACCCATTTGGCAAAGACCAATACACCTACTTATCATTTGTCACTCTCA GTATTCATTCCTTCAGTGGAGACTCCTTCTGCTTTGTTGCAAACAGAACAAGAAAGTATT AATTTGAGCTTCAG
Protein Sequence (194 aa)
>BART1_0-u27957.025 194 150831_barley_pseudomolecules SPIMMSAGELESGNAGEPAKLIRQRYREAADMIKKGKMCCLFINDLDAGAGRMGGTTQYT VNNQMVNATLMNIADAPTNVQLPGMYNKEENPRVPIVVTDFFGALRARVYDDEVRKWVGS TGIENIGKRLVNSRDGPVTFEQPKMTVEKLLEYGHMLVQEQDNVKRVQLADTYMSQAALG DANQDAMKTGSFYG