- Transcript BART1_0-u35917.005
- Transcript IDBART1_0-u35917.005
- Gene IDBART1_0-u35917
Barley RTD
Exon Structure of BART1_0-u35917.005
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr5H | 1 | 428280957 | 428280732 | + |
| chr5H | 2 | 428281957 | 428281841 | + |
| chr5H | 3 | 428282429 | 428282078 | + |
| chr5H | 4 | 428282708 | 428282511 | + |
| chr5H | 5 | 428283382 | 428283299 | + |
| chr5H | 6 | 428283709 | 428283628 | + |
| chr5H | 7 | 428283911 | 428283785 | + |
| chr5H | 8 | 428284653 | 428284091 | + |
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 | 5.14069 | 4.35525 | 2.55701 |
| morex | ETI | 4.5112 | 5.0888 | 6.64056 |
| morex | LEA | 3.78071 | 0.00000143755 | 4.63407 |
| morex | EPI | 1.90285 | 3.15089 | 4.01569 |
| morex | ROO | 1.72584 | 2.9707 | 1.28586 |
| morex | ROO2 | 6.53374 | 4.90677 | 6.88515 |
| morex | NOD | 2.746 | 3.40513 | 5.42496 |
| morex | RAC | 6.15411 | 7.6382 | 6.80355 |
| morex | INF1 | 5.13434 | 13.5178 | 8.02537 |
| morex | INF2 | 9.87515 | 6.34902 | 7.82833 |
| morex | CAR5 | 2.42648 | 11.1922 | 7.53535 |
| morex | CAR15 | 0.219987 | 4.65628 | 1.99327 |
| morex | LEM | 5.88663 | 5.84698 | 4.43176 |
| morex | LOD | 6.33286 | 7.36823 | 4.8019 |
| morex | PAL | 4.57314 | 3.73671 | 4.87714 |
| morex | SEN | 4.39471 | 3.55436 | 2.99367 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os09g12800.1 | +2 | 3e-105 | 263 | 133/160 (83%) | protein|zinc finger Ran-binding domain-containing protein 2, putative, expressed |
| TAIR PP10 | AT1G50300 @ ARAPORT AT1G50300.1 @ TAIR |
+2 | 3e-79 | 196 | 106/160 (66%) | Symbols: TAF15 | TBP-associated factor 15 | chr1:18628818-18631662 REVERSE LENGTH=372 |
| BRACH PP3 | Bradi1g19280.1.p | +2 | 7e-110 | 268 | 140/160 (88%) | pacid=32805605 transcript=Bradi1g19280.1 locus=Bradi1g19280 ID=Bradi1g19280.1.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 (1749 bp)
>BART1_0-u35917.005 1749 150831_barley_pseudomolecules CCAGCATCTCAGCCTGCCCTGCCCTCGCCCTAATTGCGTGTGCCCATCGCCCACGAAACG CCATCCCCAAGCACGCAGTGAGCGCTGAGATCCGCCCAAACCTAGCGCCGTCGCGGCTTC TCAACCACGCGGCCGCCGCCGCGTTCCCGTCGGCAGAGCACGAGGCGCGCGGTCCTCCGC GCACGCCTTCGATCCGCGCCGTCAACCTCGGCGCATCCCGGACTAGATGGCTGGATATAT GTCTCGCGGACCCCCAAATGGCTCTATTTATGTATGCAATCTGCCTCCTGGAACTGATGA GACCATGTTGGCTGAATATTTTGGCACCATAGGGTTGCTAAAGAAGGACAAAAGGACTGG CCACCCAAAGATTTGGATATACAGGGACAAAGTTACAAATGAACCAAAGGGTGATGCAAC AGTCACCTATGAAGATCCCCATGCTGCTTCAGCTGCTGTGGAATGGTTCAACAATAAGGA TTTCCATGGAAGCATCATCCAGGTTCACATAGCTGAGTCAAAAAACAAAGACACAGTTGA TAACTTCACCAATGTGAGCGTCGATGCTGAGATTGTTGGACAAGATGAATTGGATAACGG GTCAGGCAGGGGTAGAGGACGTGGTGATGGTCCAGCAAAAGCTTGGCAGCAAGATGGAGA TTGGATGTGTCCAAATACAAGGTCTGTTACGATTGCTGTGGCAATGTAAATTTTGCCTTC CGTGGTGTGTGTAATCGTTGTGGAGCCTCTCGCCCTGCTGGTGTTAGTGGATCAGGTGGT GGTGGTGGTAGGGGTAGAGGCCGTGGTAGTGATGATGCAAGAGGCAGTCGTGCTGCTGCT GCTGTTGGTGGTCCTCCTGGGCTGTTTGGTCCTAATGATTGGCCATGTACGATGTGTGGC AATGTAAACTGGGCCAAGCGGACCAAATGTAATGTCTGTAACACCTCTAGGCCAGGTCAC AATGAAGGTGGTGTGAGAGGTGGCCGGGGTGGCGGCTTTAAAGAACTTGATGAAGAAGAA CTAGAAGAAGTACGGAGGCGCCGGAAAGAAGCTGAGGAGGATGATGGAGAAATGTATGAT GAATTTGGTAACCTGAAAAAGAAGTTCCGTGCTAAGTCACATCAAACTGAGAGTACACCA ACTCTTCCTGGGTCTGGACGTGCTGGATGGGAAGTTGAGCACCGTGGTTCCACTGAGAGA GAAGGCCGAGAGAGGAGCAGAGATCGGGGCAGGGACGACTACGATGAAAGGGAAAGCAAG AACAGAGACAGAGGTTCTCATGGAAGAGAGCGGCGCCGTAGCCGAAGCAGGAGCAGAGAC CGCGAGAAGGAGAGGGGGAGGGACAGGGGCAGAGATCGTGGCAACGAGAGAAGCTGGGAG CGCGGCACTGATCGTGAACGTGATCGCTACAGATGATATGTCAGGAGTTTTGTCATGTTT GCTTGCCACTTTTCGGTTTTCTGAACCTTTTGTTATGCTGTTGGAGAGCTGTGGTGTATC ACACTGTTATCATTAACATGGGACAAGCTTATTATGTTTGGGTCTAAAGTTCTCAAAACA GACCGGATCGATGGGTCGTCAGATCATCTGGTACAACGGACCCATCAGATCATCTGGTAC ATCAACGGAATTGCCGAGGAATGACCATCGAGACCTGAAAAAGTCTGGATCATAGTATCC TTGCGGCATGAGCAGCATTTGTTCTGAAACAGAGCACCACCTCGAACTCGCTGAACAACC ATGCACCGT
Protein Sequence (174 aa)
>BART1_0-u35917.005 174 150831_barley_pseudomolecules MCGNVNWAKRTKCNVCNTSRPGHNEGGVRGGRGGGFKELDEEELEEVRRRRKEAEEDDGE MYDEFGNLKKKFRAKSHQTESTPTLPGSGRAGWEVEHRGSTEREGRERSRDRGRDDYDER ESKNRDRGSHGRERRRSRSRSRDREKERGRDRGRDRGNERSWERGTDRERDRYR