- Transcript BART1_0-u01504.004
- Transcript IDBART1_0-u01504.004
- Gene IDBART1_0-u01504
Barley RTD
Exon Structure of BART1_0-u01504.004
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr1H | 1 | 75453824 | 75452143 | + |
| chr1H | 2 | 75454279 | 75454110 | + |
| chr1H | 3 | 75454760 | 75454369 | + |
| chr1H | 4 | 75455705 | 75455528 | + |
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 | 1.78647 | 2.53778 | 0 |
| morex | ETI | 12.4907 | 13.9962 | 16.2014 |
| morex | LEA | 0 | 0 | 2.5163 |
| morex | EPI | 3.08121 | 4.33464 | 5.34135 |
| morex | ROO | 0 | 0.000551005 | 0 |
| morex | ROO2 | 3.95347 | 4.38327 | 3.11324 |
| morex | NOD | 0.852475 | 6.34455 | 1.81125 |
| morex | RAC | 3.9136 | 3.33592 | 3.61303 |
| morex | INF1 | 6.32709 | 11.3184 | 4.19594 |
| morex | INF2 | 17.0914 | 18.7116 | 16.8486 |
| morex | CAR5 | 11.831 | 12.8038 | 3.85165 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 2.99884 | 1.77934 | 1.97824 |
| morex | LOD | 4.1145 | 2.51314 | 2.52176 |
| morex | PAL | 1.81862 | 2.18154 | 4.38228 |
| morex | SEN | 0.00000011438 | 3.36567 | 2.3205 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os04g33010.1 | +1 | 2e-121 | 176 | 102/270 (38%) | protein|transposon protein, putative, unclassified, expressed |
| TAIR PP10 | None | - | - | - | - | - |
| BRACH PP3 | None | - | - | - | - | - |
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 (2422 bp)
>BART1_0-u01504.004 2422 150831_barley_pseudomolecules GTATGAGCTTAAATCACTCCTAATTGTTGTGAACCAAAACTTCTGAATGCAGGAACTTTT GATGGTCTATTTAATGTTGCGATTCAGCACAAGGGTTTTCTCTGTGCAAATGGGAGCAAC AGGAAGTACATGGACTATCAAGTTGACTGGTTTGACAATTGTGATAGTGACACATGGTCA ACCGTTTGGACAGATGATTTTCTACAGCAGTTGGGTCATGACAGATCTCACTCGAACCAT GATGTGTATTGGCTGCAGCCTGGTAAAACATGTGAAGATGGATTAAAGCTGCTGACCTGT GATGCAGGCATGCTAGCCATGATTGCTGCATCAGCAGAGCACAGTGCACAAAAATCTGGT TTTGATAGTTGACCATGGTGATACTCTAAGCAACTTACTAAGATATGATGTGCTCCTTGA TGGGGTACTTGAACAACCAATATTTATCAGTCCCAGCAAGTGTAGCAAGGGAAAGGAGGT TGTGGGTTCTTGCCAAGTTGTTGGAAGAAATACAAGAAATAAGAGAGCAAGGGGTTCTTC TTTTATTGATGCATGCTCTTCTTCGTGATGTCCTGTTGAAGTGGAAGAGCAGGAACAAGA TGAAGGCAATGATGATTCTACGGATGAAGATTTCTATGGAAGTGATTATGAAGTAAATGA AGGTGATGATGACCTCTTTGAGCAGAATGTGGACAATGAAGTAGATGATCACAAAGAGAA TCAGATTGTAGATGACTTTGAAGGAGAATTAGCTGAAGATGCACTGGATGACTCTCATTT AAACCTAAGTAAAGAAGAGAGAGAGAGAGAGAGAGAAAATCAAGTACAAATTCAATGTGT TTAATTCAAAGACTGACATGAATTCACCGGAATTCAAACTTGGTATGGTCTTTGGTGATG CGAGGGAATTGAGAAAAGCTTTAGATTCTTATGTAGTGTGGAACAGGGTGAAGGTAAGGA AGATTAGGAATTCATCCACCAGATTAGATGTTGTTTTCATAGATGGTTGTCCATGGTACA TGAATGCCTCCAAGGATGCGAGGACAAGCAGTTTCTTCATAATGAAGTTTTGTGGAATTC ACACTTGCAGTGAAGTCGGGAATGTCAAATCCTTGACTGCACCATTTCTCTAATAAGTTC AAACATGAGTTCAGGGATAATGAGTAGATGCCCTTAAAGAAATTTGGTGCAAAAGTGCAG ACGGAGTACAATATGCTTCCAACCAGAAGTAAGATAGGAAGGGCAAGAAGGGCAGCAGTG AAGCAGATTAGAGGTGAAGATGATGACCAGTACAAACTTCTGTTGGATTTTGGCCAGGAA CTTAGAAGATCTAACCCAGACAGCAAGTTCTATCTTTGCACAAAGGAAGTGAAGAAGGAG AAGCATCCATTCCCAAAAGAACACTTCTCTACTCTATACTGGTCCTATGATGCTTGCAAG AGAGGCTTCCTTATGGGTTGTAGGCAAATAATCTTCGTTCATGGCTGCCACATAAAGACA AGGTACAAAGGGAATTTGCTAACTGCAGTTGGAATTGACCCAAATGACTGCATATTTTCT GTTGCTTTTGGTTTGGTGGAAGTTGAGTCAACTGATAGTTGGGATGGTTTCTGGCTAGTT TAAAGGTTGATCTGCATATTTGCAACACATCCCCATTCACAATCATGAGTGACAAGCAAA AGATCAACTACTGTTGAGGCATATACCAACAATATGGAGAAGATGAGAGTTGATAGCCAG GATGCATATAATTGGGTTGCGAAAGTGCCACCAAGGACATGGTTAAAGCATTCTTCAATC CTTTCCCAAAATGTGACATTCTTTTGAACGACATGTCTGAAGTATTCAACAGCTATATCT TAGAAGAAAGAGAACTTCCAATTGGATCCATGCTAGGGAACATTCAGAATAAGTTAACCC ACAGATTTGAGTCAAAAAATAGGGAGGCAAGTGAGAAGTGGACAGGGAGATTGTGCCCAA AAATGCAGAAAAAGGTAGAAACGTATGTTGAGTGGGCTAAGAACTGCACAGTACTGGATG CTGGACAAAGGGTTTTCAAGGTGAAAGGGTTGAACAACTCATATATTGTGGATTTAAACA CAATGTGTTGTGATTGCAAAAGGTGGGAGTTGTCACCCTTCCCTGGGAGATTGAGTCTCT AGCTGCAGCAATAAATGTTACTCAGGAAGGGGGATATTTTGTCTGGGTAGGAATAATGAC TTCTCTCCTAAACAAGGAAATGAGGAGGCACAGAGAATTGCTCGAGCGGCGGCATTGGGT CGCCATCGACCATCTCGTTGTACTTTTGTCAGTCGTAGATGCCACTATCATTGACGAGCG CATGCAGGGATGCCGCTGCATAACTCTGCTCTGCAATTGGATTCATTGACAGCCTTGAGT CTTGTGTGTACGTTATTCATAT
Protein Sequence (151 aa)
>BART1_0-u01504.004 151 150831_barley_pseudomolecules MPLKKFGAKVQTEYNMLPTRSKIGRARRAAVKQIRGEDDDQYKLLLDFGQELRRSNPDSK FYLCTKEVKKEKHPFPKEHFSTLYWSYDACKRGFLMGCRQIIFVHGCHIKTRYKGNLLTA VGIDPNDCIFSVAFGLVEVESTDSWDGFWLV