- Transcript BART1_0-u20322.013
- Transcript IDBART1_0-u20322.013
- Gene IDBART1_0-u20322
Barley RTD
Exon Structure of BART1_0-u20322.013
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 230454148 | 230453745 | + |
| chr3H | 2 | 230454815 | 230454273 | + |
| chr3H | 3 | 230455710 | 230455549 | + |
| chr3H | 4 | 230456504 | 230456035 | + |
| chr3H | 5 | 230456754 | 230456614 | + |
| chr3H | 6 | 230457777 | 230457660 | + |
| chr3H | 7 | 230458200 | 230458030 | + |
| chr3H | 8 | 230459535 | 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 | 0.766019 | 0.215119 | 0.772345 |
| morex | ETI | 1.62217 | 1.57871 | 1.29086 |
| morex | LEA | 1.48814 | 0.00000000490431 | 0.60908 |
| morex | EPI | 4.41611 | 3.88186 | 1.78061 |
| morex | ROO | 0 | 1.24646 | 0.242279 |
| morex | ROO2 | 1.61568 | 1.53138 | 1.33657 |
| morex | NOD | 1.14913 | 3.207 | 2.42856 |
| morex | RAC | 3.4226 | 3.3431 | 4.0525 |
| morex | INF1 | 0.754932 | 3.04328 | 1.06323 |
| morex | INF2 | 1.96801 | 1.40925 | 1.98337 |
| morex | CAR5 | 1.46573 | 3.68991 | 0.000530462 |
| morex | CAR15 | 0 | 0.0000366916 | 1.03008 |
| morex | LEM | 3.13426 | 2.57899 | 3.3639 |
| morex | LOD | 2.72195 | 3.00154 | 2.83122 |
| morex | PAL | 2.28948 | 1.47535 | 4.35662 |
| morex | SEN | 3.94551 | 3.13784 | 1.82513 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19480.1 | +1 | 2e-59 | 214 | 109/169 (64%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +1 | 4e-67 | 239 | 121/168 (72%) | 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 (2757 bp)
>BART1_0-u20322.013 2757 150831_barley_pseudomolecules CGCAAGTAAAAAAACGCATAACATCAAAACAGCCCCGTACGTGAGATTGCGCGTCAAAAA ACCCTATCGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATCGCCGA GGGGATCCCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGA CACGTCCCCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCGTCCCC GACCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGG CCGCCTCGCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGCCATGG CGTCGTCCTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTCGACGT GGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCA GCAGGCCCGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCCTTGTG AATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGTGTGCCTATGTT GTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGC CTGTTCGATGTGGCTGCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTG CTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGG TCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTC GTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCG TCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCCTGGACAAAAACCAAAGAATG GCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAG GCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTT TTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGATATTATGCCAGGCGAGAGAC ACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTT GGTCGAGGATGGAGCTGACACGCTGTGACGCCACAGCTATTGAGGCTATCCGTCAAGTGT GGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTT GCTTTATCGTTGCCGGATCAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCG GTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGA ATCATGTGCAAGCCGTGAGATTTCGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAAT ATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACCGGAGGGCCGTGAGGGACATCAA GAATATGATCAGCATGTTTGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTC TCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTG TGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGCAAGTGCAGATGGTTATACG TTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATC ATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAA AAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTAT CAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATGGA CTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACA TGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCTAG GGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACATCAGGTTG AAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCAC GTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGA CTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGGGGCCTAAA GTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAG TGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGGATCAGGGG AGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTT TAGTTATGTTACTGTCTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTA TTAACTTGCTGTGTGTATGTGATTGTGAACTACTTCCATATTTTAGAAATATTATAAGGG AAAAGTTTTTGGTCAGCCGGCGGATCTGTCTGTGTGCACATCAATCGCCTTTCTGACCAT CGGATCTTTTATAATCAGACCACTTTAAAGCATCTTTTTTTATAGTTTAAATTTGCA
Protein Sequence ( aa)
>BART1_0-u20322.013 150831_barley_pseudomolecules