- Transcript BART1_0-u30598.010
- Transcript IDBART1_0-u30598.010
- Gene IDBART1_0-u30598
Barley RTD
Exon Structure of BART1_0-u30598.010
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 574820351 | 574820336 | + |
| chr4H | 2 | 574820541 | 574820449 | + |
| chr4H | 3 | 574820930 | 574820755 | + |
| chr4H | 4 | 574821065 | 574821019 | + |
| chr4H | 5 | 574822272 | 574822203 | + |
| chr4H | 6 | 574822810 | 574822683 | + |
| chr4H | 7 | 574822997 | 574822908 | + |
| chr4H | 8 | 574823189 | 574823114 | + |
| chr4H | 9 | 574823585 | 574823332 | + |
| chr4H | 10 | 574829188 | 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 | 4.4338 | 2.12987 | 4.52161 |
| morex | ETI | 1.45292 | 0 | 0 |
| morex | LEA | 0.600274 | 0.847777 | 1.48909 |
| morex | EPI | 0 | 0 | 0.601134 |
| morex | ROO | 0.352914 | 4.16323 | 0.464885 |
| morex | ROO2 | 4.10754 | 0.000363612 | 1.01071 |
| morex | NOD | 0 | 0.004811 | 2.0596 |
| morex | RAC | 5.13834 | 0.00203799 | 0 |
| morex | INF1 | 12.5779 | 3.20386 | 10.491 |
| morex | INF2 | 11.4633 | 5.33112 | 8.35784 |
| morex | CAR5 | 7.56072 | 4.54255 | 6.54094 |
| morex | CAR15 | 1.63459 | 1.21375 | 0 |
| morex | LEM | 0 | 1.33542 | 2.26812 |
| morex | LOD | 0.924814 | 0.539185 | 0.218064 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 3.71616 | 0 | 3.49569 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g10460.1 | +3 | 3e-140 | 407 | 216/311 (69%) | protein|expressed protein |
| TAIR PP10 | AT2G18410 @ ARAPORT AT2G18410.1 @ TAIR |
+3 | 2e-52 | 180 | 113/313 (36%) | 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 | +3 | 8e-161 | 459 | 235/311 (76%) | pacid=32795801 transcript=Bradi1g71057.2 locus=Bradi1g71057 ID=Bradi1g71057.2.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 (1308 bp)
>BART1_0-u30598.010 1308 150831_barley_pseudomolecules GGAAGGCGCAGGCCAGGGGACTTGTGGTTGTGGCGTTTGACCGGAGCCCGGAAGTTTACC TGGATGCCATGCTTCGGCACGGCCTTGATTCGAATGCACTGAGTCGATGTGTTCGGATAT TGGATTGCTACTCAGACCCACTCGGGTGGAAGAAAAATATCCGAAGTCAGCAGCATCATG AGGACAGTGGAACACCGTGCTCATCAAACAAAGGCAACATCACAATTTTCAGAAGCGTGA AGGATGTTGATAAGTTATCGTGCTCCATAATTGATCTTGGAAGAGGGTTTGAAGGAGAAG GCAAGACCTATTTTTCTGTTGCTCTCGATTCAATTAGCTCTATGTTAAGGCATGCTTCAG TGCAATCAATTTCAGGCCTTCTTAGTAATCTTCGGAGCCATGAGCCAGAAGTTGTAGATT CTGTATATGGAGAAGAACGTAGGGGGGACATGTCTTTCCTTGAGCATAACTATTCGAAAG CAAAGTTCCATGTGCGCCTGAAACGAAGGAATGGACGGGTGAAGCATCTGCATGAGGAGT TATGTGTTGAGGGATATGATGTAAAATTTGTTTCTGCTACTTCTGTAAGTATGGAAGTGA ACCAAAGTCTACTACCTAAGGTTCAGTTCAATCTTGAGCTGTCAGAAAAGGAACGGAGTG ACAGGGCAAATGTTGTTCTTCCTTTCGAACATCAAGGAAAGGGCGAGCCAATCCGTATAT ATGATGGACGGCGATCTCTCCCGGAGGCTCGTCAAGATCTCAATTTTACTACGGCAGCTC TCCTGGATGAAACAGAAGCTCTTAAATCTGCAGACACGAAGGGTGAAATTCATTACCTTC GTGATTCTGATGATGAGCGACCTGACTCGGATGAAGACCCCGATGATGATTTGGATATTT AGCCACAATGTGAGCTCTGTTTATCCTAGTGGTCAGCTATCAAGTCAAAGGAACATCAGG CGCTTGCGAAAATTCTAGGAGGCGTTCACTTTGCGTGGGCGGCTGGAGCTACTGCATAGT TATGGTTGAACAATTTAAGCACCTGTATTATGTATAGCTTCGTGAGCATTGGAAGGCAAC CTTTGCAAATCACTGGGTTTGAAATTTCTTGGATGCTCAAGACTAATGTGTTGATGGTAG CATATCGAATGAAAGGTCATATGCCCCAATGCGATTTTGTAGTTTTGTTTCGACGTGGAT GAATGTTGGCTAGTGTGTCAGTCGCTGAAATGGGTCCAGAACAAGAGGATGCGACATGTA ACACTGTTTTTTCAGTTATATGAGAATATACACCGGGCTATTTGTTTG
Protein Sequence (299 aa)
>BART1_0-u30598.010 299 150831_barley_pseudomolecules KAQARGLVVVAFDRSPEVYLDAMLRHGLDSNALSRCVRILDCYSDPLGWKKNIRSQQHHE DSGTPCSSNKGNITIFRSVKDVDKLSCSIIDLGRGFEGEGKTYFSVALDSISSMLRHASV QSISGLLSNLRSHEPEVVDSVYGEERRGDMSFLEHNYSKAKFHVRLKRRNGRVKHLHEEL CVEGYDVKFVSATSVSMEVNQSLLPKVQFNLELSEKERSDRANVVLPFEHQGKGEPIRIY DGRRSLPEARQDLNFTTAALLDETEALKSADTKGEIHYLRDSDDERPDSDEDPDDDLDI