- Transcript BART1_0-u54453.042
- Transcript IDBART1_0-u54453.042
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.042
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 514442287 | 514442086 | - |
| chr7H | 2 | 514442474 | 514442367 | - |
| chr7H | 3 | 514442603 | 514442556 | - |
| chr7H | 4 | 514443079 | 514442719 | - |
| chr7H | 5 | 514443422 | 514443298 | - |
| chr7H | 6 | 514443642 | 514443512 | - |
| chr7H | 7 | 514444399 | 514444096 | - |
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 | 0 | 0 |
| morex | ETI | 0 | 0 | 0.0000000082505 |
| morex | LEA | 0 | 0 | 0 |
| morex | EPI | 0 | 0 | 0 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0 | 0 | 0 |
| morex | RAC | 0 | 0 | 0.0435011 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0 | 0 | 0 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g09250.1 | +1 | 2e-148 | 341 | 168/188 (89%) | protein|glyoxalase family protein, putative, expressed |
| TAIR PP10 | AT1G11840 @ ARAPORT AT1G11840.6 @ TAIR |
+1 | 8e-116 | 275 | 131/183 (72%) | Symbols: GLX1 | glyoxalase I homolog | chr1:3995928-3997518 FORWARD LENGTH=322 |
| BRACH PP3 | Bradi3g14960.1.p | +1 | 6e-116 | 341 | 166/189 (88%) | pacid=32813745 transcript=Bradi3g14960.1 locus=Bradi3g14960 ID=Bradi3g14960.1.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 (1279 bp)
>BART1_0-u54453.042 1279 150831_barley_pseudomolecules GCCTCCTTCCCTTTCTTATTTGGATTCGTATCTGTATGTAGTTTGATTTGTTTCAAGCAC TGCGTCTGGGGAGGATTTTTGGAAAACAGAGTGAATCATGGGAAAACCCCCGATCCGGAT TTTTTAGAACCACCCCCAATCCAACTATGCGTGCAGTTTGCTGGTTTTTATTTTTATTTT TACTTTGATTTAGCAGAACATCTTCCTGGCGTGGTAGCGGCTGGGCTGTGGGGGAGGTGC TCATGGATGGATTGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGGCGCTACTTATTTA TCCAGTGACAACAGGGATGGCTACCGGTAGCGAAGCTGGAAAGTCCGCCGAGGCCGTGCT GGAATGGCCTAAGCAGGACAAAAAGAGGATGCTGCATGCTGTTTACCGTGTGGGAGATCT TGACAAAACCATTAAGTGTTACACAGAATGCTTTGGGATGAAGCTGCTGAGGAAAAGAGA TGTCCCAGAAGAGAAGTACACCAATGCGTTTCTTGGGTTTGGACCTGAGGATACTAATTT TGCACTTGAGCTGACTTACAATTATGGTGTTGACAAGTACGACATTGGAGCGGGCTTTGG ACATTTTGCCATCGCAAATGAGGATGTATGTATTGTTTACCTGCAACATCTTACCCTTTA TGTTACAGACCCTTGGGCTTGTTTGATGTCATGGATGCAATGCAGGTGTACAAGCTGTCT GAGACAATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGA GGGTCCACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAG AGGGGTCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGG GCTATCATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCT CAGTATAAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTG GAGTTGACATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTT GCTATTGGCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAA CTAGGTGGAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACC TCTTTCCTTGACCCAGATGGCTGGAAAGTGGTATGTCTTCTGGATGTCTTGTGCATAACA CTGCTTTATTTGAATCGAG
Protein Sequence (217 aa)
>BART1_0-u54453.042 217 150831_barley_pseudomolecules MYCLPATSYPLCYRPLGLFDVMDAMQVYKLSETIKSSDCCKITREPGPVKGGSTVIAFAQ DPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMKLLRKKDVPQYKYTIAMM GYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAEAVELVTKELGGKILRQP GPLPGLNTKITSFLDPDGWKVVCLLDVLCITLLYLNR