- Transcript BART1_0-u17640.009
- Transcript IDBART1_0-u17640.009
- Gene IDBART1_0-u17640
Barley RTD
Exon Structure of BART1_0-u17640.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 18479150 | 18478631 | - |
| chr3H | 2 | 18479916 | 18479746 | - |
| chr3H | 3 | 18480277 | 18480169 | - |
| chr3H | 4 | 18481341 | 18481201 | - |
| chr3H | 5 | 18481920 | 18481434 | - |
| chr3H | 6 | 18482405 | 18482244 | - |
| chr3H | 7 | 18483644 | 18483139 | - |
| chr3H | 8 | 18484119 | 18483774 | - |
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 | 0.0263273 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0.138337 | 0.0708945 | 0.0247486 |
| morex | INF1 | 0 | 0.0000056762 | 0 |
| morex | INF2 | 0.0815034 | 0.141886 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0.000577695 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0.0614129 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0.0348332 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g19480.1 | +2 | 1e-51 | 196 | 115/228 (50%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +2 | 2e-62 | 224 | 127/230 (55%) | 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 (2442 bp)
>BART1_0-u17640.009 2442 150831_barley_pseudomolecules CGTCATCCTACCCCCCACACATCGCTACCCTATGCCGCCGTCATCATCGCCGAGGGCATC CCCAGTCCCCGACCGCGGCCACCCGATCCCATGCCTGACCTTGGCGGCGCCGACACGTCC CCGATCGCGGTCTCCCCGCTCCCTCCCGATCGCGGCAGGACCGCCTCGTCCCCAACCGCG GCCGCGTCACCCTGTCAAAGAACGGTGACGCCTCACCCCGTCCCCGACCACGGCCGCCTC GCGTCGAGGAGCAGTAGGTGGTCGGCCTACGGCGGCTCGCACCATCGCCATGGTGTCGTC CTCCTCCAAAGCCTCCTCCTCCTCCTCCCACCGGGATGGCCCCATGTGGCTCGACGTGGG CACCTCCGCGCTCATGGCGCTCCACGGGAAGCTGACGCAGATGAAGCGCCAAATCCAGCA GGCCTGCCTCACCTCCATGAGGATAAAGCACCGGCATCATCTACGGAATTCCTTGTGAAT TGTGAGTTTCGGGTCACTCAATGTGATCCTCCTGTTTTGAGCTTGTGTGCCTATGTTGTG TTTTGACAGGAGAAGCTGGAGGCAAACAGGAGGGCGTTGCAGAAGCACACCTGCGGCGTC GAGGGGCTCGGAGAGCAGCAATGTGTTGTCGCAGCTCGCCTCGGACGGCCAGTCCAGGAT CATTGGGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGA GAACCTGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCAT CGTTTTGCAGCTTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGAT CTTCCTGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAAT TTACTATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGC ACAACCTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTCAA CTTGATATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGA GGAAGAGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCCGACACGCTGTGCCGCCACA GCTATTGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGC TGGTGTTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATGAATGCACTCGAGGAGG CGGCAGTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCT ACATGCGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTGGGAACCACTAG ATTGTGACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATGAACATGA ACCAGAGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTGAGATGTTCTTCCA TGTTCAGATTTTCACATGACTGATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGC CCATGCGGCAGAGCAAGGGATACTTATGGAACATATACGTTGTGTCAATGCATCGTTAGG CGAACATCTTTCTATTTTGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGA ATGTGAGAGGCCCTCGGGAGTGAAAAAACTATCGTTTGAGATAGTTGTTGGATTGAACAG CCGGAGCGTGGTGGCAAGGCAGCTAGAGACAAAAAGGGAATTGGTGAAAAAGCAACTCGC ACATCTATAGGTCTCTTGGAATCTCACATTTATCAATTTATGGAAAGGGGCATCCATTGG CATTCTAATAATTTTGTTAGAGAACGGCATAGACTGAGGCAGCCGATGTGAACGAACACC GGGTACCCATAAACAAGAGGAAAAAACAACACATGTACAACGACAACAAGGTTAGCTAAG AAAAAATCAGGCTGCCGGTGTCTATTAACCCAGGGCATGATCTTGGGACGTCCGGCTTCT TTCCAAAGCGAGATCTCATCCAACATCAAGTTGAAGACACTCCAAATGGTGGAACTTAAG TTGCGGACAATTCTGGTGTTTCGCTCCTTCCACGTGAACCACCAGATAGCCTGCACTAAG TAGTTCCATCCCTTCTTCTTCGGGGCAGCAAGACTGGCAGCGGAACTTTCCACTCGATCC GAGAGGCGGGTGGTGTCGCTGGAGGGGCCTAAAGTAGCCGAGGTTGCAGGTAGCAGCATG AGCCGCCAAATAGCCTGAAAAATAGGCATTGAGTGAGCAAAAGAATGTTGTCTTCATCCG TTGAGCGACTCATGTAGTACACGGGATCAGGGGAGCAGTCCCTTTTCTGCACATTGTCCC CGGTATATGTTGGCTTGGCCTTCTACTGCCCTTTTAGTTATG
Protein Sequence (172 aa)
>BART1_0-u17640.009 172 150831_barley_pseudomolecules MLCFDRRSWRQTGGRCRSTPAASRGSESSNVLSQLASDGQSRIIGWNLARGSGERKVVHV QEENLSADGMLVLCSSGNGAQTIVLQLMKLSSVDKIPPYTTWIFLDKNQRMADDQSIAGR RRIYYDSARNEALIWSESDEQIAQPEEEKHVFTEAEDQLIWFNLILCQARDT