- Transcript BART1_0-u20322.117
- Transcript IDBART1_0-u20322.117
- Gene IDBART1_0-u20322
Barley RTD
Exon Structure of BART1_0-u20322.117
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 230454148 | 230453812 | + |
| chr3H | 2 | 230454412 | 230454273 | + |
| chr3H | 3 | 230454815 | 230454481 | + |
| chr3H | 4 | 230455917 | 230455544 | + |
| chr3H | 5 | 230456504 | 230456035 | + |
| chr3H | 6 | 230456754 | 230456614 | + |
| chr3H | 7 | 230457777 | 230457669 | + |
| chr3H | 8 | 230458200 | 230458030 | + |
| chr3H | 9 | 230459305 | 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 | 0.00576413 | 0 |
| morex | ETI | 5.25215 | 3.73566 | 4.80891 |
| morex | LEA | 0.0299483 | 1.61555 | 2.31321 |
| morex | EPI | 4.50304 | 3.78613 | 3.69842 |
| morex | ROO | 0 | 0.424874 | 0 |
| morex | ROO2 | 0.617221 | 0.895667 | 0 |
| morex | NOD | 0.967809 | 0.918749 | 2.15553 |
| morex | RAC | 1.5513 | 2.17417 | 0.795001 |
| morex | INF1 | 0.938731 | 1.19154 | 1.44164 |
| morex | INF2 | 2.67567 | 2.5665 | 4.02418 |
| morex | CAR5 | 3.17437 | 3.25051 | 1.9844 |
| morex | CAR15 | 2.93549 | 1.10597 | 2.93446 |
| morex | LEM | 2.37006 | 4.73171 | 2.57806 |
| morex | LOD | 4.04981 | 2.49289 | 1.58304 |
| morex | PAL | 2.78322 | 3.19974 | 2.22738 |
| morex | SEN | 1.32749 | 2.91197 | 2.09271 |
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-54 | 144 | 83/152 (55%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +1 | 1e-62 | 165 | 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 (2595 bp)
>BART1_0-u20322.117 2595 150831_barley_pseudomolecules CGTCATCCTACCCCCCGCACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGGATC CCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCC CCGATCGCGGTCGCCCCGCTCCCTCCAGATTGCGGCAGGACCGCCTCGTCCCCGACCGCG GCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTC GCGTCGAGGAGAAGTAGGTGGTCGGCCTACGGCGGCTCGAACCATCGCCATGGCGTCGTC CTCCTCCAAAGCCTCCTCCCACCGGGATGGCCCCATGATCAGTGGCTCGACGTGGGCACC TCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCAGCAGGCC CGCCTCACCTCCATGAGGATAAAGCATCGGCATCATCTACGGAATTCCTTGTGAATTGAG AAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCGGCGGCCTGTTCGATGTGGCT GCCAAGGCGGAGGCGGCGTTGAGGGGCTCGGAGAGCAGCAATGTGCTGTCGCAGCTCGCC TCGGACGGCCAGTCCAGGATCGTTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAG GTTGTGCATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCC GGCAACGGCGCACAAACCATCGTTTTGTAGATTATGAAGCTGTCGTCGGTTGATAAGATT CCTCCCTACACCACGTGGATCTTCCTGGACAATGCAGAAACCAAAGAATGGCCGATGATC AATCAATTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAGGCTCTAATCT GGAGTGAAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTTTTCACTGAAG CAGAAGATCAGCTAATATGGTAATAATAGAATATATATTGGCCAATTGAGATGCTTTTTA ATGCATATTGATGTTGAACTTGAAAATGCTTGTTGGCTAGCACATATTCTAGAAGGACTT AGTAGTAGACTATTCTTTAATACTATGTTTCATCGCCAATTTTGCATGTTCGATGTGGCA CACGTGCGGCATGTTCGATGTGGCCGCCAAGGCGGAGGTGGCGTTGGTTCAACTTGATAT TATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAGAGA GATGATTGTCGTCCCTTGGTCGAGGATGGAGCTGACACGCTGTGACGCCACAGCTATTGA GGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTGTTT CTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATCAATGCACTCGAGGAGGCGGCAGTG GATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATGCGT TCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTCGGAACCACTAGATTGTGAC AGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATCAACATGAACCGGAGG GCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTTCAGATTTTCACATGACTGATG CCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTT ATGGAACATATACGTTGTGCCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGATG GTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAA AAACTATCATTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTA GAGACAAAAAGGGAATTGGTGAAAGAGCAACTCGCACATCTATAGGTCTCTTGGAATCTC ACATTTATCAATTTATGGAAAAGGGCATCCATTGGCATTCTAATAATTTTGTTAGAGAAC GGCATGGACTGAGGCAGCCGATGTGAACGAACACCGGGTACCCATAAACAAGAGGAAAAA ACAACACATGTACAACGACAACAAGGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTAT TAACCTAGGGCATGATCTTGGGACGTCCGGCTTCTTTCCAAAGTGAGATCTCATCCAACA TCAGGTTGAAGACACTCAAAATGGTGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCT CCTTCCACGTGAACCACCAGATAGCCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGG CAGCAAGACTGGCAGCGGAACTTTCCACTCAATCTGAGAGGCGGCTGGTGTCGCTGGAGG GGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAG GCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCGTTGAGCGACTCATGTAGTACACCGG ATCAGGGGAGCAGCCCCTTTTCTGCACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTA CTGCCCTTTAGTTAT
Protein Sequence (157 aa)
>BART1_0-u20322.117 157 150831_barley_pseudomolecules RHPTPRTSLPYAAVIIAEGIPSPRPRPPDPMPDLGGADTSPIAVAPLPPDCGRTASSPTA AASPCQRTVTPHPVPDHGRLASRRSRWSAYGGSNHRHGVVLLQSLLPPGWPHDQWLDVGT SALMALHGKLTQMKRQIQQARLTSMRIKHRHHLRNSL