- Transcript BART1_0-u44413.009
- Transcript IDBART1_0-u44413.009
- Gene IDBART1_0-u44413
Barley RTD
Exon Structure of BART1_0-u44413.009
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr6H | 1 | 210489211 | 210488467 | - |
| chr6H | 2 | 210489823 | 210489301 | - |
| chr6H | 3 | 210490007 | 210489916 | - |
| chr6H | 4 | 210490185 | 210490092 | - |
| chr6H | 5 | 210490796 | 210490666 | - |
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 | 7.7151 | 4.88621 | 5.63106 |
| morex | ETI | 3.48922 | 2.98532 | 3.04031 |
| morex | LEA | 2.97882 | 5.37519 | 3.69812 |
| morex | EPI | 8.76535 | 7.14319 | 7.15742 |
| morex | ROO | 1.39243 | 5.19067 | 1.09667 |
| morex | ROO2 | 2.61996 | 2.43249 | 2.21176 |
| morex | NOD | 5.37789 | 4.7313 | 3.60517 |
| morex | RAC | 8.27332 | 9.12836 | 9.21619 |
| morex | INF1 | 7.88909 | 7.94003 | 7.26114 |
| morex | INF2 | 13.5208 | 12.5317 | 14.745 |
| morex | CAR5 | 8.87147 | 10.7008 | 12.0772 |
| morex | CAR15 | 2.71543 | 2.89734 | 4.17444 |
| morex | LEM | 2.76481 | 3.65868 | 4.79623 |
| morex | LOD | 7.68074 | 4.54638 | 4.89079 |
| morex | PAL | 3.64782 | 4.50659 | 5.05682 |
| morex | SEN | 2.79887 | 3.34415 | 4.68297 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os02g13110.1 | +1 | 5e-60 | 166 | 75/85 (88%) | protein|serine/threonine protein phosphatase 2A 55 kDa regulatory subunit B, putative, expressed |
| TAIR PP10 | AT1G17720 @ ARAPORT AT1G17720.1 @ TAIR |
+1 | 6e-55 | 157 | 70/84 (83%) | Symbols: ATB BETA | Protein phosphatase 2A, regulatory subunit PR55 | chr1:6093949-6098065 REVERSE LENGTH=501 |
| BRACH PP3 | Bradi3g08400.4.p | +1 | 1e-61 | 171 | 78/85 (92%) | pacid=32816173 transcript=Bradi3g08400.4 locus=Bradi3g08400 ID=Bradi3g08400.4.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 (1585 bp)
>BART1_0-u44413.009 1585 150831_barley_pseudomolecules TGTACAGATTTGAGGAGCATGAAGCACCTGGATCAAAATCCTTTTTTACGGAGATAATTG CATCCGTTTCAGATATAAAGTTTGCAAGGGATGGACGGCATATTCTTAGTCGTGATTATA TGACTCTCAAGTTCAATATCCTTTGTCTTTCTTCAGTTATGGGATCTCAACATGGATTCA GGCCCAGTAGCAACTTTCCAAGTTCATGAACATTTAAGGCCTAAGCTTTGCGATCTATAT GAAAATGATTCAATCTTTGACAAATTTGAATGTTGTCTGAGTGGGGATGGTCATCGTGTT GCGACTGGCTCTTACAGTAACTTATTTCGTGTTTTTGGTTGTACTCCTGGAAATACCGAG GCAACCACTTTAGAAGCAAGCAGAAACCCTATGAGGTATGCCATTGTCTTATGATTTTAT TATTTATGTTTATATTGTTATGAACGAGTTATACTCTACTTGGACATGGGCTAGTCCAAT TTCTGCATAATTCATAAGCACCTTGCATCCGACATAATTCTATGCTTCACTTCGTGCAAT ATGGAACTGCCTATTCTCCTGCTATTCTGGAGCTACCTAGATTTCTTCTTTATGTTTCAT TTATGATTCATATGCCAAGTTGGTGGGATTACCAAATACTCACATAGGTGTACAGTGACC AATTAGTAGGTATAAACACAACAATGTTCACTGACCCACACTCTTAACATAAATTATGTT TTCTAAACCTGGCTAATTATTTCTTCGTTTGTTGGGATTGAAAACCGTATAGGCGTCAGG TTGCTAATCCAACAAGGCCTACAAGAACACTGACCTCTTTGACCCGTGCTGTGAGGAGAG GGGGTGAAAATGCAGGAGCCGATGGCAATGGGAATTCTAATGACTTCTCAACAAAGTTAC TCCATCTTGCGTGGCACCCAACTGAGAACTCCATTGCGTGTGCTGCTGGAAATAGCTTGT ACATGTATTATGCATAGGGAATGTGCTAGAGAAGATTCACTGTTTTTGGTTTGTGCAACG TGAAAGCTTCGGCCTTGCACATGCAACCAGAGAAATGGTGCAGAACATTGTCATCAATTC TGTGATTGGGGGTCGGAAGAGGCGGTTGGCACCCAGGGGATGGATATCCTCCAACTCCAA GCATAGCAGACTATTTCCTTCTGATTCTTTAGTAAATGTGAAACACAAATTCTAATCGCA CGATTGTAGCTGCATGTGTAGCCAAAACACCAGCAGTTGGAGGACAGAGCAGAAGATAGC AAGGCTGATTCTAATTTCACTTGGTCCCAGGAAATATCTGCTTACGGTGGATGTAAGAAA TTTTCTTTTCTCTTCATCAAGTGTAATGTAATGCCGCCTAGCCAGGTTTAACCATCTGCT GTCACCAACGGTGAAACATCTGTGGACATAAATTATGACTTGTAGCCCCCCCCTCCCCCC TCTATTTGTTGGTGGTCGAAACTTACAATAAGTTTGCAGGTGTGACTCAACTCCTGCTGC ATGTGATCGGCTATGACCTAAGTTGTATATGCTACATTTTGCCATGCAAAACTCACAACT AATGATATGGATTCTTGAGTATTCA
Protein Sequence ( aa)
>BART1_0-u44413.009 150831_barley_pseudomolecules