- Transcript BART1_0-u17640.011
- Transcript IDBART1_0-u17640.011
- Gene IDBART1_0-u17640
Barley RTD
Exon Structure of BART1_0-u17640.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 18479916 | 18479882 | - |
| chr3H | 2 | 18480286 | 18480169 | - |
| chr3H | 3 | 18481341 | 18481201 | - |
| chr3H | 4 | 18481920 | 18481455 | - |
| chr3H | 5 | 18482405 | 18482244 | - |
| chr3H | 6 | 18483325 | 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 | 1.13352 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0 | 0.118466 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0.129025 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0.09381 | 0 | 0 |
| morex | CAR5 | 1.26713 | 1.37295 | 2.13306 |
| morex | CAR15 | 1.72508 | 2.15232 | 1.15883 |
| morex | LEM | 0 | 0.590706 | 0.322509 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 1.2687 | 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 | 4e-42 | 158 | 84/118 (71%) | protein|SET domain containing protein, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | Bradi1g64460.4.p | +3 | 1e-48 | 175 | 88/117 (75%) | pacid=32796250 transcript=Bradi1g64460.4 locus=Bradi1g64460 ID=Bradi1g64460.4.v3.1 annot-version=v3.1 |
Barley PseudoMolecules GBrowse
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grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons
CDS Sequence (1109 bp)
>BART1_0-u17640.011 1109 150831_barley_pseudomolecules GGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACC TGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTT TGCAGCTTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCC TGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACT ATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAAC CTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGA TATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAG AGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCCGACACGCTGTGCCGCCACAGCTAT TGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTG TTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATGAATGCACTCGAGGAGGCGGCA GTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATG CGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTGGGAACCACTAGATTGT GACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATGAACATGAACCAG AGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTCAGATTTTCACATGACTGATGC CCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATACTTA TGGAACATATACGTTGTGTCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAGCAAG TGCAGATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGG GAGTGAAAAAACTATCGTTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAA GGCAGCTAGAGACAAAAAGGGAATTGGTG
Protein Sequence (127 aa)
>BART1_0-u17640.011 127 150831_barley_pseudomolecules WNLARGSGERKVVHVQEENLSADGMLVLCSSGNGAQTIVLQLMKLSSVDKIPPYTTWIFL DKNQRMADDQSIAGRRRIYYDSARNEALIWSESDEQIAQPEEEKHVFTEAEDQLIWFNLI LCQARDT