- Transcript BART1_0-u17640.004
- Transcript IDBART1_0-u17640.004
- Gene IDBART1_0-u17640
Barley RTD
Exon Structure of BART1_0-u17640.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 18479150 | 18478545 | - |
| chr3H | 2 | 18479916 | 18479746 | - |
| chr3H | 3 | 18480286 | 18480169 | - |
| chr3H | 4 | 18481341 | 18481201 | - |
| chr3H | 5 | 18481920 | 18481451 | - |
| chr3H | 6 | 18482410 | 18482244 | - |
| chr3H | 7 | 18484124 | 18483139 | - |
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 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.0928635 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 1.00169 | 2.49639 | 2.02135 |
| morex | CAR15 | 1.7379 | 1.8172 | 2.61075 |
| morex | LEM | 0 | 0 | 0.126052 |
| morex | LOD | 0 | 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 | +1 | 6e-44 | 108 | 74/176 (42%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +1 | 7e-49 | 119 | 77/168 (46%) | 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 (2659 bp)
>BART1_0-u17640.004 2659 150831_barley_pseudomolecules CCTATCGTCATCCTACCCCCCACACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGG GCATCCCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACA CGTCCCCGATCGCGGTCTCCCCGCTCCCTCCCGATCGCGGCAGGACCGCCTCGTCCCCAA CCGCGGCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCC GCCTCGCGTCGAGGAGCAGTAGGTGGTCGGCCTACGGCGGCTCGCACCATCGCCATGGTG TCGTCCTCCTCCAAAGCCTCCTCCTCCTCCTCCCACCGGGATGGCCCCATGGTATCGTTA GTCGGCCTTCGATTCCCCTAGCCGCCCGGTTCCCCGCCTCAATCTCCCTCCCGAATCTAA TCTGTTTCGATCCTTTTTCGTCCCCTGGTTTTATCTTGTGCTCTGCACCGGCCAGATCAG TGGCTCGACGTGGGCACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAG CGCCAAATCCAGCAGGCCTGCCTCACCTCCATGAGGATAAAGCACCGGCATCATCTACGG AATTCCTTGTGAATTGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGT GTGCCTATGTTGTGTTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGC ACACCTGCGGCGTCGAGGGGCTCGGAGAGCAGCAATGTGTTGTCGCAGCTCGCCTCGGAC GGCCAGTCCAGGATCATTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTG CATGTGCAGGAGGAGAACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAAC GGCGCACAAACCATCGTTTTGCAGCTTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCC TACACCACGTGGATCTTCCTGGACAACGCAGAAACCAAAGAATGGCCGATGATCAATCAA TTGCTGGTAGGAGGAGAATTTACTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTG AAAGTGATGAACAAATTGCACAACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAG ATCAGCTAATATGGTTCAACTTGATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAA CGGCCGAGCTCGCCTCCGAGGAAGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCC GACACGCTGTGCCGCCACAGCTATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCAT CTGGTGTTGTCACCTAGGCTGGTGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGG ATGAATGCACTCGAGGAGGCGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAAT TTTGTTTTTGCGATTTTCTACATGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGT GAGATTTGGGAACCACTAGATTGTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGC TATGAAGGCATGAACATGAACCAGAGGGCCGTGAGGGACATCAAGAATATGATCAGCATG TTTGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGT GCCCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGTCAATGCATCGTTA GGCGAACATCTTTCTATTTTGCAGCAAGTGCAGATGGTTATACGTTTGAAACATCAACTG GCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCGTTTGAGATAGTTGTT GGATTGAACAGCCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAA AAGCAACTCGCACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAGGG GCATCCATTGGCATTCTAATAATTTTGTTAGAGAACGGCATAGACTGAGGCAGCCGATGT GAACGAACACCGGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAA GGTTAGCTAAGAAAAAATCAGGCTGCCGGTGTCTATTAACCCAGGGCATGATCTTGGGAC GTCCGGCTTCTTTCCAAAGCGAGATCTCATCCAACATCAAGTTGAAGACACTCCAAATGG TGGAACTTAAGTTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAG CCTGCACTAAGTAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTT CCACTCGATCCGAGAGGCGGGTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAG GTAGCAGCATGAGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTT GTCTTCATCCGTTGAGCGACTCATGTAGTACACGGGATCAGGGGAGCAGTCCCTTTTCTG CACATTGTCCCCGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTTAGTTATGTTACTGT CTAGAAATATTTGTAGTAGTTTTAAGATTTGAAAGCTCATTTTTATTAACTTGCTGTGTA TGTGATTGTGAACTACTTC
Protein Sequence (158 aa)
>BART1_0-u17640.004 158 150831_barley_pseudomolecules MPIFQAIWRLMLLPATSATLGPSSDTTRLSDRVESSAASLAAPKKKGWNYLVQAIWWFTW KERNTRIVRNLSSTIWSVFNLMLDEISLWKEAGRPKIMPWVNRHRQPDFFLANLVVVVHV LFFPLVYGYPVFVHIGCLSLCRSLTKLLECQWMPLSIN