- Transcript BART1_0-u29974.011
- Transcript IDBART1_0-u29974.011
- Gene IDBART1_0-u29974
Barley RTD
Exon Structure of BART1_0-u29974.011
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr4H | 1 | 511457260 | 511455975 | + |
| chr4H | 2 | 511457495 | 511457384 | + |
| chr4H | 3 | 511458396 | 511457592 | + |
| chr4H | 4 | 511459148 | 511458505 | + |
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 | 0.358934 | 0 | 0.131305 |
| morex | ETI | 0.619499 | 0 | 0.0437154 |
| morex | LEA | 6.55017 | 8.82091 | 13.209 |
| morex | EPI | 0.217034 | 0.0716737 | 0.606231 |
| morex | ROO | 0 | 0.833265 | 0.705607 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 3.47919 | 7.31887 | 0.0896819 |
| morex | RAC | 0.328646 | 0.366809 | 0.261737 |
| morex | INF1 | 0.0712599 | 0.164627 | 0.191511 |
| morex | INF2 | 0.324231 | 0.340661 | 0.324279 |
| morex | CAR5 | 0.455406 | 0.122202 | 0 |
| morex | CAR15 | 0.838889 | 0 | 0 |
| morex | LEM | 0.229976 | 6.87536 | 0.542229 |
| morex | LOD | 0.607849 | 0.216907 | 0.548217 |
| morex | PAL | 0.229844 | 0 | 0.0641604 |
| morex | SEN | 1.33695 | 2.5367 | 3.95187 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os03g15890.2 | +1 | 7e-41 | 155 | 71/81 (88%) | protein|RNA recognition motif containing protein, expressed |
| TAIR PP10 | AT1G07350 @ ARAPORT AT1G07350.2 @ TAIR |
+1 | 2e-33 | 125 | 56/82 (68%) | Symbols: | RNA-binding (RRM/RBD/RNP motifs) family protein | chr1:2258816-2259586 REVERSE LENGTH=129 |
| BRACH PP3 | Bradi1g67145.1.p | +1 | 1e-43 | 162 | 76/81 (94%) | pacid=32805382 transcript=Bradi1g67145.1 locus=Bradi1g67145 ID=Bradi1g67145.1.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 (2847 bp)
>BART1_0-u29974.011 2847 150831_barley_pseudomolecules GGAAAAGAGAGGCGGTGGTCGCAGGTCGGAACTGACGGAGGCAGAGGCGAAGACGAAGAC AGAGACTCGAGAGGCCTCGCAGCGGCGACGAATCAAAGGTATTTCCTCGCCTTCTTCCTC GTGTTTCGTCAGTAGCATGATGATACTAGCATGTGAAGGGCGCTGCGAATTCATTCTGTC TTCTGTTCTAGCAGTTTGATTTGGCGATAGTTTTGCACATACAGCTCATGACCCGCAGAT CGTAGAGAGCCATGACACCAAATACTTGCCAGTAGAAAAACGTATGTCAGGGGTCGGAGG CTGATTGATCCTCAATTCTGTTTCGCAAATGCGCTAGATCTATATTTTTTTTTAGAAAAG GAGGACCCCGCCTCTGCATTTGGGAGATGCATGCGGCCATTTTGTTGATTATTCTTGAGG ACCTTATAAAGCAGTATAATAATATGACTGAATCCGCCGTCTTAGCAACATCTGTCACTA CTCCTATCCATATGATGAAGGGGTGCAAGCTGGACCAAATATCGAGACCTCTCACCTAAT CCTAACATCTAAAGCCAAAGACCCTGACCGAGCCACATATCGGATCCAGGACACAAACCG GTCCGACACACTCACATGTGTCGTCGTCGCCATCTTTCACTGGTCCATCTTCAGATCAGG TTGAGGTACCAGCCTTGGCAGGTGCCTCCGTCATCGGCGCTAGATCTATATGACATAAAG CAAATTAAACCGAGAATTCCCTCAATTCGTGTTCTGTGCGTAGTGGTTTCATCTGGACTG CAATTGTACTACCTAACGCGATGAGGATAACAGATTTACTGAACCCGCGTGACTTATACG GGCACTTTGAATTGTTGGGAAGGAAACTGTTACGGGAACAGACAGCCTCTAACAGTGAAC TGAATAATTGTAGCTATGTATTATGTCTCCAAGCTTTTGCACACACAACAATCTATGACC ACATATGCACAAGAACACGAACGATTAATTCATGGCTGCGACAAAGAATTTATCTTCGAC ACTGTGAAGTGTAAACTGATGGTGGATTGCATGCTGTGAAATCGAACTATTGCAGTGATC GGAGCTTCTATGGTCAGGTTAATTAGATAATTGTATGATCTATTGGGGCTATGCGGTATA CTATGTTACAAAGTCATGGCACATTTAGAAATTTAGTTAGATGCTACTTTCTCTTTGTGT TTTCTATACGAGTCCTCTGGTAGGTATTGATTCATTTGCCTGTATGTCTTGCAGATGTCG TATTCGAGGTACAGGAGTCGTTCAAGGAGTGTGGACTCGAGTGATGTTGAGAACCCTGGG AACAATCTCTTTGTGACTGGTTTATCATCTCGTCTAACTGATCGAGATCTGGAGAAGCAT TTCTCTACAGAGGGAGAGGTGATTGATGCAAGTATTGTACTTGATCCATGGACAAGGGAA TCACGGGGATTTGGATTTGTTACCATGGCCAATCTTAAGGAGGCAGAACGCTGCATCAAA TATCTCGACAGTTCAGTGCTGGAAGGTCGTGTCATTACTGTTGAGAAGGTATTGCCAAAA GATTGTTAACTCTGATATTTGTCCATTCTCCTTCTATATAGAGTGGAACTATTATGTACA GATTAGCCTTCCAAGCTGAATATTTGAGTGCTCTTCTTGTTTGAAGATTTTGTTGACAGC AGCAGGTTGATGCCCGCAGCTGTATGGCATCAAATTCAAAAGATACACAACCTAAGATCG AAACAATGCTACCTCAACCAAAGGGTTGTACGCCCACCGTTATTTTATTTTTCTGTATTA TTTGTGTAGTTCAGATCCCCAATAATTTATCCAGTCTTGCTTTTGACATAAAACACAATT ACTGATTTGGAGCCCCCTTCTCCACCACAGGCAAAGAGAAGACGAGGTCGAACCCCAACA CCGGGAAGGTACCTTGGCAGCAAATCATCGCGTCGTAAGTTACTGTGACATGATTTATCT TTTGACACCTCAGTACCATGAATTATATGCTGGAAAGTGAGCATGATGACACTTCATATC ACATATGATTGTTGACATTTGATTATATGGTGATACCAGGAAGGAGGTATTCCCGAAGCA GGTCACCTGTTAGGAGAGACCGTTACGGCTCACGCTACCCGCCCGAGCTAGAACGTTCTT ATTCTCCTTATCGCAGAGGACGATCATACTCTCGTCATGACAGGTCGGAGTCTCCCTACC ACAGGCGTAGATCCTACTCACCCTACGACAGGCGTCACTCACCCCGCTATGGTCATCGCC ACCGTTCAAGATCCCCATACAGTTACAGAAGGCGGAGGTCATGCTCCCATGACCGTTATG TTTCAGCATACTACAGCAGGCGCTATTCTCCAAGGAACAGAAGACGGAGTTACTCTCGCA GCGTATCACCACGCAGGAGCTACTCCCGTAGCTGCTCCCTGGCGTCAGAAGAATCAAGGA GCTGTTCTCCGCAGAAAGGATATGCTGAAAGCAAGGCATCGCGCAGCAGGTCACCTGCGA TTGCGAAGAGGCGTTCTAGAGAAAGCTATGCGCACAGCCGCAGTTCATGCTCGAGGTCCG TCTCCAGGGAGCGCTCAACCTCATCAAGCACCTGATGGTTTACAAAGTGCCTTGATGACT TTGGATGTTTGTAAACAATGTGGATGGTATGATCGTGTACCTAGTGAAGCAGCTGTATTT CGTCATCGTTAACATCTTAAATTGCAGTCTGCTTCCATACTATAGGAGAAAAATGCAGAA AATTTCCTACAGATTGCCTATTCCACAAGGATTTTATAGCATACTTCTACAACGGAAAAA ACGCAGAAATTTTCATAAATATTGGCG
Protein Sequence (104 aa)
>BART1_0-u29974.011 104 150831_barley_pseudomolecules MSYSRYRSRSRSVDSSDVENPGNNLFVTGLSSRLTDRDLEKHFSTEGEVIDASIVLDPWT RESRGFGFVTMANLKEAERCIKYLDSSVLEGRVITVEKVLPKDC