- Transcript BART1_0-u27957.011
- Transcript IDBART1_0-u27957.011
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877905 | 166877307 | - |
| chr4H | 2 | 166878985 | 166878131 | - |
| chr4H | 3 | 166879382 | 166879237 | - |
| chr4H | 4 | 166880213 | 166879812 | - |
| chr4H | 5 | 166880783 | 166880335 | - |
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 | 2.51045 | 2.77588 | 1.05591 |
| morex | ETI | 0.463536 | 0.618498 | 1.63165 |
| morex | LEA | 171.265 | 360.68 | 24.2907 |
| morex | EPI | 15.8438 | 8.57092 | 12.6936 |
| morex | ROO | 0 | 0.262137 | 0.0567606 |
| morex | ROO2 | 0 | 0.238269 | 0 |
| morex | NOD | 7.42787 | 1.40531 | 0.76764 |
| morex | RAC | 0 | 0.380882 | 0 |
| morex | INF1 | 5.18387 | 2.32106 | 1.86472 |
| morex | INF2 | 5.43181 | 6.69002 | 4.89521 |
| morex | CAR5 | 45.0467 | 60.0792 | 58.759 |
| morex | CAR15 | 14.7268 | 26.4644 | 18.9337 |
| morex | LEM | 0.516078 | 0.81754 | 0.947492 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.460934 | 0.535687 | 0.158256 |
| morex | SEN | 13.2994 | 12.261 | 12.1668 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os11g47970.1 | +3 | 0.0 | 592 | 296/345 (86%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.2 @ TAIR |
+3 | 0.0 | 516 | 261/351 (74%) | Symbols: RCA | rubisco activase | chr2:16571046-16573345 REVERSE LENGTH=446 |
| BRACH PP3 | Bradi4g09125.1.p | +3 | 0.0 | 627 | 311/357 (87%) | 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 (2451 bp)
>BART1_0-u27957.011 2451 150831_barley_pseudomolecules GAAAAAATGAAAGGCACGGAAGAAATGGGAGATGATTTGAGCATGAATGGTTAGATTCTG TGGCCGTGGAAGGCCATGGAATTGATGGCCAGCAGACGTATCTGCAGCTGCAGCTGCAGC GTTTGGTCTTGACGGTCCAAGTCATCCAACCGGCCGGCCAAGACGCTCAGAACCCAATCT CCAGCGTGTGGCCTCTGGGGGATCGGGAGGCTGATCCACAAGCAGGGGTGTGTGTATGCC GCCTCCTCCTCCAAGCTCCCCACAGCAGAGCAGCAATATGCCAATCCACGTGTATTTAAG GCGTCACATAGCTCGGCCTCTATACTTTGAGCAGCAGCAGTCATTCATCACTGATCACCA GCACAGCCGCGCGCATCCACCGTTGCTAGCAAGGTCGACCAAGCAGCACAGAGATGGCTG CTGCCTTCTCCTCCACCGTCGGGGCTCCGGCTTCTACGCCGACCAACTTCCTCGGGAAGA AGCTCAAGAAGCAGGTGACCTCGGCCGTGAACTACCATGGCAAGAGCTCCAAGGCCAACA GGTTCACAGTCATGGCAGCGGAGAACATCGACGAGAAGAGGAACACCGACAAGTGGAAGG GTCTTGCGTACGATATCTCCGACGACCAGCAGGACATCACCAGAGGGAAGGGCATCGTGG ACTCGCTCTTCCAGGCGCCCACGGGCGACGGCACCCACGAGGCCGTCCTCAGCTCCTACG AGTACGTCAGCCAGGGCCTGCGGAAGTACGACTTCGACAACACCATGGGAGGCTTCTACA TCGCTCCTGCTTTCATGGACAAGCTTGTTGTCCATCTCTCCAAAAACTTCATGACCCTGC CCAACATCAAGCAGAAGCAGCAATAAAATGAATCATTCTGATTCTGAAACTGACCTTGAA TCGAAATTCAGATCCCACTCATCTTGGGTATCTGGGGAGGCAAGGGTCAAGGAAAATCAT TCCAGTGTGAGCTTGTGTTCGCCAAGATGGGCATCAACCCCATCATGATGAGTGCCGGAG AGCTGGAGAGTGGGAACGCTGGAGAGCCAGCCAAGCTCATCAGGCAGCGGTACCGTGAGG CTGCAGACATGATCAAGAAGGGTAAGATGTGCTGCCTCTTCATCAACGATCTTGACGCTG GTGCGGGTAGGATGGGCGGAACCACGCAGTACACCGTCAACAACCAGATGGTGAACGCCA CCCTGATGAACATCGCCGATGCCCCCACCAACGTGCAGCTCCCTGGCATGTACAACAAGG AGGAGAACCCCCGTGTGCCCATCGTCGTCACCGGTAACGATTTCTCGACGCTCTACGCTC CTCTGATCCGTGATGGTCGTATGGAGAAGTTCTACTGGGCTCCCACCCGTGACGACCGTA TCGGTGTCTGCAAGGGTATCTTCCAGACCGACAATGTCAGTGACGAGTCTGTCGTCAAGA TCGTCGACACCTTCCCAGGACAATCCATTGGTATATTTCTCTTGTTTCCAAATATATATA TATATATTCATCAGGGCAGACAAGTTGTATATCAGTAATTAACAAAGTATCATGCATCGA TCCGATACAGACTTTTTCGGTGCTCTGCGTGCTCGGGTGTACGACGATGAGGTGCGCAAG TGGGTCGGCTCTACCGGAATCGAGAACATTGGCAAGAGGCTGGTGAACTCGCGGGACGGG CCCGTGACCTTCGAGCAGCCAAAGATGACAGTCGAGAAGCTGCTAGAGTACGGGCACATG CTCGTCCAGGAGCAGGACAATGTCAAGCGTGTGCAGCTTGCTGACACCTACATGAGCCAG GCAGCTCTGGGTGATGCTAACCAGGATGCGATGAAGACTGGTTCCTTCTACGGTAAAGGA GCACAGCAAGGTACTTTGCCCGTGCCGGAAGGTTGCACCGACCAAAATGCCAAGAACTAC GACCCAACGGCAAGGAGCGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACTTT TAATATCTGATGTTTTACCTACCTAAGTCCGCATCGCATCCAAGCGATTGCTGGGCATGT TTTGTTAATATATCTCTAAATATATTGAGTATACCCATTTGGCAAAGACCAATACACCTA CTTATCATTTGTCACTCTCAGTATTCATTCCTTCAGTGGAGACTCCTTCTGCTTTGTTGC AAACAGAACAAGAAAGTATTAATTTGAGCTTCAGCTTATTAATTATTATTGCACAAACGC ATGGAAACTGAGAGTCAATTGCGATCATGCGATACATACAGCGTGTAATTTTAGCCCTGA TGTTCCAACGTCCAAATTAGATCCCCAAAACTAAACGTCATTTAAGCTTAGAAAGACAAA CAGAAAGGAGCAGTTGTTTCAAATGATTGCTGTGGAGAACTACATCCTTAATAAGCAGCT GCATCATGATGTGGTTCCCTAAGAGCATCTCCAGCCGTTCGATCTTCCGGG
Protein Sequence (183 aa)
>BART1_0-u27957.011 183 150831_barley_pseudomolecules MGINPIMMSAGELESGNAGEPAKLIRQRYREAADMIKKGKMCCLFINDLDAGAGRMGGTT QYTVNNQMVNATLMNIADAPTNVQLPGMYNKEENPRVPIVVTGNDFSTLYAPLIRDGRME KFYWAPTRDDRIGVCKGIFQTDNVSDESVVKIVDTFPGQSIGIFLLFPNIYIYIHQGRQV VYQ