- Transcript BART1_0-u27957.012
- Transcript IDBART1_0-u27957.012
- Gene IDBART1_0-u27957
Barley RTD
Exon Structure of BART1_0-u27957.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 166877994 | 166877307 | - |
| chr4H | 2 | 166878435 | 166878081 | - |
| chr4H | 3 | 166878985 | 166878513 | - |
| chr4H | 4 | 166879382 | 166879237 | - |
| chr4H | 5 | 166880213 | 166879812 | - |
| chr4H | 6 | 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 | 0.142859 | 0.82305 | 0.897135 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 95.3226 | 212.92 | 158.937 |
| morex | EPI | 0 | 0.158313 | 2.02935 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.0830407 | 0.0759304 |
| morex | NOD | 7.66024 | 10.3523 | 8.85668 |
| morex | RAC | 2.44157 | 1.83433 | 2.14265 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 2.15152 | 0 |
| morex | CAR5 | 6.60019 | 0.00441794 | 5.90009 |
| morex | CAR15 | 0.618225 | 0.178233 | 0 |
| morex | LEM | 2.4738 | 3.97783 | 8.83828 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 3.55764 | 4.56565 | 3.42641 |
| morex | SEN | 38.9793 | 170.132 | 135.71 |
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 | 590 | 295/342 (86%) | protein|AAA-type ATPase family protein, putative, expressed |
| TAIR PP10 | AT2G39730 @ ARAPORT AT2G39730.3 @ TAIR |
+3 | 0.0 | 514 | 260/348 (75%) | Symbols: RCA | rubisco activase | chr2:16571174-16573345 REVERSE LENGTH=441 |
| BRACH PP3 | Bradi4g09125.1.p | +3 | 0.0 | 625 | 310/354 (88%) | 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 (2513 bp)
>BART1_0-u27957.012 2513 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 TCGTCGACACCTTCCCAGGACAATCCATTGTATCATGCATCGATCCGATACAGACTTTTT CGGTGCTCTGCGTGCTCGGGTGTACGACGATGAGGTGCGCAAGTGGGTCGGCTCTACCGG AATCGAGAACATTGGCAAGAGGCTGGTGAACTCGCGGGACGGGCCCGTGACCTTCGAGCA GCCAAAGATGACAGTCGAGAAGCTGCTAGAGTACGGGCACATGCTCGTCCAGGAGCAGGA CAATGTCAAGCGTGTGCAGCTTGCTGACACCTACATGAGCCAGGCAGCTCTGGGTGATGC TAACCAGGATGCGATGAAGACTGGTTCCTTCTACGGTTAGAAAATTCTCCATACACACCC ACCATCTCTTGCTGCATAGGAGGAGGGAGTGGAGGCCTGTTTTTCTTACCTGCTCTTCCG CCGGCATATCAAGCTCATCTTCTCATCACGTCGTCCAAAACAATTAAATTGCAGGTAAAG GAGCACAGCAAGGTACTTTGCCCGTGCCGGAAGGTTGCACCGACCAAAATGCCAAGAACT ACGACCCAACGGCAAGGAGCGACGACGGCAGCTGCCTTTACACCTTTTAAGCATGCCACT TTTAATATCTGATGTTTTACCTACCTAAGTCCGCATCGCATCCAAGCGATTGCTGGGCAT GTTTTGTTAATATATCTCTAAATATATTGAGTATACCCATTTGGCAAAGACCAATACACC TACTTATCATTTGTCACTCTCAGTATTCATTCCTTCAGTGGAGACTCCTTCTGCTTTGTT GCAAACAGAACAAGAAAGTATTAATTTGAGCTTCAGCTTATTAATTATTATTGCACAAAC GCATGGAAACTGAGAGTCAATTGCGATCATGCGATACATACAGCGTGTAATTTTAGCCCT GATGTTCCAACGTCCAAATTAGATCCCCAAAACTAAACGTCATTTAAGCTTAGAAAGACA AACAGAAAGGAGCAGTTGTTTCAAATGATTGCTGTGGAGAACTACATCCTTAATAAGCAG CTGCATCATGATGTGGTTCCCTAAGAGCATCTCCAGCCGTTCGATCTTCCGGG
Protein Sequence (150 aa)
>BART1_0-u27957.012 150 150831_barley_pseudomolecules MAAAFSSTVGAPASTPTNFLGKKLKKQVTSAVNYHGKSSKANRFTVMAAENIDEKRNTDK WKGLAYDISDDQQDITRGKGIVDSLFQAPTGDGTHEAVLSSYEYVSQGLRKYDFDNTMGG FYIAPAFMDKLVVHLSKNFMTLPNIKQKQQ