- Transcript BART1_0-u30598.006
- Transcript IDBART1_0-u30598.006
- Gene IDBART1_0-u30598
Barley RTD
Exon Structure of BART1_0-u30598.006
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 574820351 | 574820275 | + |
| chr4H | 2 | 574820541 | 574820449 | + |
| chr4H | 3 | 574820930 | 574820755 | + |
| chr4H | 4 | 574821144 | 574821019 | + |
| chr4H | 5 | 574822272 | 574822203 | + |
| chr4H | 6 | 574822810 | 574822584 | + |
| chr4H | 7 | 574822997 | 574822908 | + |
| chr4H | 8 | 574823189 | 574823114 | + |
| chr4H | 9 | 574823585 | 574823332 | + |
| chr4H | 10 | 574827612 | 574827520 | + |
| chr4H | 11 | 574829314 | 574828831 | + |
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 | 1.67034 | 1.62576 | 0 |
| morex | ETI | 1.85315 | 2.09543 | 3.09242 |
| morex | LEA | 0.573078 | 0.275486 | 1.17494 |
| morex | EPI | 0.676263 | 2.14227 | 0.659542 |
| morex | ROO | 0.205718 | 0.894479 | 0.66292 |
| morex | ROO2 | 0.623633 | 1.33267 | 1.20626 |
| morex | NOD | 0.879886 | 0.725909 | 1.00018 |
| morex | RAC | 2.22973 | 2.1406 | 3.21653 |
| morex | INF1 | 4.33528 | 3.34036 | 4.41518 |
| morex | INF2 | 5.2223 | 4.58921 | 5.00487 |
| morex | CAR5 | 2.27231 | 0.361036 | 1.9658 |
| morex | CAR15 | 0.795748 | 0 | 0.551037 |
| morex | LEM | 3.60589 | 1.39767 | 2.3475 |
| morex | LOD | 3.23326 | 2.74109 | 0.741632 |
| morex | PAL | 2.02242 | 2.68355 | 2.02504 |
| morex | SEN | 2.54854 | 2.01673 | 3.27583 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g10460.1 | +2 | 2e-100 | 310 | 167/218 (77%) | protein|expressed protein |
| TAIR PP10 | AT2G18410 @ ARAPORT AT2G18410.1 @ TAIR |
+2 | 4e-42 | 155 | 87/204 (43%) | Symbols: | FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Histone acetylation protein 2 (InterPro:IPR019519); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink). | chr2:7990768-7992588 FORWARD LENGTH=374 |
| BRACH PP3 | Bradi1g71057.2.p | +2 | 2e-115 | 348 | 176/218 (81%) | pacid=32795801 transcript=Bradi1g71057.2 locus=Bradi1g71057 ID=Bradi1g71057.2.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 (1766 bp)
>BART1_0-u30598.006 1766 150831_barley_pseudomolecules CCCCTCGCGGCGCGCGCCATGCTCCACGTCGCCGCCGCCGTCGCCTCCAACGCGGCCGCG GGGAAGGCGCAGGCCAGGGGACTTGTGGTTGTGGCGTTTGACCGGAGCCCGGAAGTTTAC CTGGATGCCATGCTTCGGCACGGCCTTGATTCGAATGCACTGAGTCGATGTGTTCGGATA TTGGATTGCTACTCAGACCCACTCGGGTGGAAGAAAAATATCCGAAGTCAGCAGCATCAT GAGGACAGTGGAACACCGTGCTCATCAAACAAAGGCAACATCACAATTTTCAGAAGCGTG AAGGATGTTGATAAGTTATCGTGCTCCATAATTGATCTTGGAAGAGGGTTTGAAGGAGAA GGCAAGACCTATTTTTCTGTTGCTCTCGATTCAGTATGTACCTTGATGGAAACTTTTTTT CTTCCATGGAAACTGCAAAGCTTACTTGGGGCAGATTTTAATACAGTACTAAATTAGCTC TATGTTAAGGCATGCTTCAGTGCAATCAATTTCAGGCCTTCTTAGTAATCTTCGGAGCCA TGATCAGATATCATCAATCTTCTGGCTAATGCATTCAGATCTCCATGAAACCAAGTTTTC CCGAGCTTTTGAATGCCTTTCTACCATGGTTGCTTGTGTAGAGCCAGAAGTTGTAGATTC TGTATATGGAGAAGAACGTAGGGGGGACATGTCTTTCCTTGAGCATAACTATTCGAAAGC AAAGTTCCATGTGCGCCTGAAACGAAGGAATGGACGGGTGAAGCATCTGCATGAGGAGTT ATGTGTTGAGGGATATGATGTAAAATTTGTTTCTGCTACTTCTGTAAGTATGGAAGTGAA CCAAAGTCTACTACCTAAGGTTCAGTTCAATCTTGAGCTGTCAGAAAAGGAACGGAGTGA CAGGGCAAATGTTGTTCTTCCTTTCGAACATCAAGGAAAGGGCGAGCCAATCCGTATATA TGATGGACGGCGATCTCTCCCGGAGGCTCGTCAAGATCTCAATTTTACTACGGCAGCTCT CCTGGATGAAACAGAAGCTCTTAAATCTGCAGACACGAAGGGTGAAATTCATTACCTTCG TGATTCTGATGATGAGCGACCTGACTCGGATGAAGACCCCGATGATGATTTGGATATTTA GCCACAATGTGAGCTCTGTTTATCCTAGTGGTCAGCTATCAAGTCAAAGATCCTCTTCAA CGACTCCAACCAACAACGTGGTCAAATACGAGACTCTCATTCATGGTTTGCGTTTGGCCA TCTCCATGGGCATTCACAAGAGGAACATCAGGCGCTTGCGAAAATTCTAGGAGGCGTTCA CTTTGCGTGGGCGGCTGGAGCTACTGCATAGTTATGGTTGAACAATTTAAGCACCTGTAT TATGTATAGCTTCGTGAGCATTGGAAGGCAACCTTTGCAAATCACTGGGTTTGAAATTTC TTGGATGCTCAAGACTAATGTGTTGATGGTAGCATATCGAATGAAAGGTCATATGCCCCA ATGCGATTTTGTAGTTTTGTTTCGACGTGGATGAATGTTGGCTAGTGTGTCAGTCGCTGA AATGGGTCCAGAACAAGAGGATGCGACATGTAACACTGTTTTTTCAGTTATATGAGAATA TACACCGGGCTATTTGTTTGCTGGATGCTTACTTCTGTTCATTAATGTTTGATGGCTAGT AGTAACTGATTGTTCAGCCTTTGGTGAATTTCCATTAACTAAACCAGCGTTAAACGCGTG ACATGCTTCATTTTACTGTCGTATAG
Protein Sequence (219 aa)
>BART1_0-u30598.006 219 150831_barley_pseudomolecules MLRHASVQSISGLLSNLRSHDQISSIFWLMHSDLHETKFSRAFECLSTMVACVEPEVVDS VYGEERRGDMSFLEHNYSKAKFHVRLKRRNGRVKHLHEELCVEGYDVKFVSATSVSMEVN QSLLPKVQFNLELSEKERSDRANVVLPFEHQGKGEPIRIYDGRRSLPEARQDLNFTTAAL LDETEALKSADTKGEIHYLRDSDDERPDSDEDPDDDLDI