- Transcript BART1_0-u17640.010
- Transcript IDBART1_0-u17640.010
- Gene IDBART1_0-u17640
Barley RTD
Exon Structure of BART1_0-u17640.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr3H | 1 | 18479916 | 18479882 | - |
| chr3H | 2 | 18480277 | 18480169 | - |
| chr3H | 3 | 18481341 | 18481201 | - |
| chr3H | 4 | 18481920 | 18481451 | - |
| 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 | 0.293057 | 0.11695 |
| morex | ETI | 0 | 0 | 0 |
| morex | LEA | 0.0780379 | 0.000163263 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 1.287 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0.311193 |
| morex | RAC | 0.329376 | 0.517944 | 0.122114 |
| morex | INF1 | 0 | 0.628627 | 1.80916 |
| morex | INF2 | 1.63373 | 0.495001 | 0 |
| morex | CAR5 | 3.64724 | 0.203227 | 0 |
| morex | CAR15 | 3.08918 | 1.19437 | 2.00239 |
| morex | LEM | 0 | 0 | 0.165245 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0.0302776 | 0.387726 | 1.14673 |
| 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 (1104 bp)
>BART1_0-u17640.010 1104 150831_barley_pseudomolecules GGTGGAACCTGGCGAGAGGGTCGGGGGAGAGGAAGGTTGTGCATGTGCAGGAGGAGAACC TGTCGGCCGACGGGATGCTCGTGCTCTGCAGCTCCGGCAACGGCGCACAAACCATCGTTT TGCAGCTTATGAAGCTGTCGTCGGTTGATAAGATTCCTCCCTACACCACGTGGATCTTCC TGGACAAAAACCAAAGAATGGCCGATGATCAATCAATTGCTGGTAGGAGGAGAATTTACT ATGATTCAGCTCGCAACGAGGCTCTAATCTGGAGTGAAAGTGATGAACAAATTGCACAAC CTGAGGAAGAGAAGCATGTTTTCACTGAAGCAGAAGATCAGCTAATATGGTTCAACTTGA TATTATGCCAGGCGAGAGACACATAGAGTTAGGGAACGGCCGAGCTCGCCTCCGAGGAAG AGAGATGATTGTCGTCCCTTGGTCGAGGATGGAGCCGACACGCTGTGCCGCCACAGCTAT TGAGGCTATCCGTCAAGTGTGGCCGGATTTGGGCATCTGGTGTTGTCACCTAGGCTGGTG TTTCTCCTCTATGCACGCTTGCTTTATCGTTGCCGGATGAATGCACTCGAGGAGGCGGCA GTGGATCCCTAGGTTTTTCGGTTTTTGAAAGAGAATTTTGTTTTTGCGATTTTCTACATG CGTTCCATCAGCAATTGAGAATCATGTGCAAGCCGTGAGATTTGGGAACCACTAGATTGT GACAGTGCAGGAAGTAAAATATGCGTCGGAGACGGCTATGAAGGCATGAACATGAACCAG AGGGCCGTGAGGGACATCAAGAATATGATCAGCATGTTTGTTCAGATTTTCACATGACTG ATGCCCAGAGCTAGCAGGTCTCAGGACTGAGCTCGTGCCCATGCGGCAGAGCAAGGGATA CTTATGGAACATATACGTTGTGTCAATGCATCGTTAGGCGAACATCTTTCTATTTTGCAG ATGGTTATACGTTTGAAACATCAACTGGCCTGTCAAGAATGTGAGAGGCCCTCGGGAGTG AAAAAACTATCGTTTGAGATAGTTGTTGGATTGAACAGCCGGAGCGTGGTGGCAAGGCAG CTAGAGACAAAAAGGGAATTGGTG
Protein Sequence (127 aa)
>BART1_0-u17640.010 127 150831_barley_pseudomolecules WNLARGSGERKVVHVQEENLSADGMLVLCSSGNGAQTIVLQLMKLSSVDKIPPYTTWIFL DKNQRMADDQSIAGRRRIYYDSARNEALIWSESDEQIAQPEEEKHVFTEAEDQLIWFNLI LCQARDT