- Transcript BART1_0-u20322.142
- Transcript IDBART1_0-u20322.142
- Gene IDBART1_0-u20322
Barley RTD
Exon Structure of BART1_0-u20322.142
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 230454412 | 230454222 | + |
| chr3H | 2 | 230454815 | 230454481 | + |
| chr3H | 3 | 230455917 | 230455544 | + |
| chr3H | 4 | 230456524 | 230456035 | + |
| chr3H | 5 | 230456754 | 230456614 | + |
| chr3H | 6 | 230457777 | 230457669 | + |
| chr3H | 7 | 230458200 | 230458030 | + |
| chr3H | 8 | 230459481 | 230458788 | + |
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 | 0 | 0.282507 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0.0689642 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.272796 | 0 | 0.0479153 |
| morex | RAC | 0 | 0 | 0.407692 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0.506761 |
| morex | CAR5 | 0 | 0 | 0.184524 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.00805487 | 0.0768263 | 0 |
| morex | LOD | 0.0036151 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19480.1 | +3 | 2e-55 | 147 | 83/152 (55%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +3 | 4e-63 | 167 | 92/156 (59%) | pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.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 (2505 bp)
>BART1_0-u20322.142 2505 150831_barley_pseudomolecules TTTCGATCCTTTTTCGTCCCCTGGTTTTATCTCGTGCTCTGCACCGGACAGATCAGTGGC TCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCC AAATCCAGCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATT CCTTGTGAATTGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGCC TGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTGC TGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGGT CGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCG TGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCGT CGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAATGCAGAAACCAAAG AATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAA CGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCA TGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTAATAATAGAATATATATTGGCCAAT TGAGATGCTTTTTAATGCATATTGATGTTGAACTTGAAAATGCTTGTTGGCTAGCACATA TTCTAGAAGGACTTAGTAGTAGACTATTCTTTAATACTATGTTTCATCGCCAATTTTGCA TGTTCGATGTGGCACACGTGCGGCATGTTCGATGTGGCCGCCAAGGCGGAGGTGGCGTTG GTTCAACTTGATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGC CTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGTGAC GCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCAC CTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCACTCG AGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGA TTTTCTACATGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGGAAC CACTAGATTGTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCA ACATGAACCGGAGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTGAGATGTT CTTCCATGTAGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTG AGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGCCAATGC ATCGTTAGGCGAACATCTTTCTATTTTGCAGATGGTTATACGTTTGAAACATCAACTGGC CTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCATTTGAGATAGTTGTTGG ATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAAGA GCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAAGGGC ATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGACTGAGGCAGCCGATGTGA ACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAAGG TTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAGGGCATGATCTTGGGACGT CCGGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTGAAGACACTCAAAATGGTG GAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAGCC TGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTTCC ACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAGGT AGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTTGT CTTCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGGAGCAGCCCCTTTTCTGCA CATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTAGTTATGTTACTGTCTA GAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTGTAT GTGATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGGAAAAGTTTTTGGTCAGCC GGCGGATCTGTCTGTGTGCACATCAATCGCCTTTCTGACCATCGG
Protein Sequence ( aa)
>BART1_0-u20322.142 150831_barley_pseudomolecules