- Transcript BART1_0-u54453.029
- Transcript IDBART1_0-u54453.029
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.029
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 514441144 | 514440929 | - |
| chr7H | 2 | 514442287 | 514442135 | - |
| chr7H | 3 | 514442474 | 514442367 | - |
| chr7H | 4 | 514442603 | 514442556 | - |
| chr7H | 5 | 514443079 | 514442719 | - |
| chr7H | 6 | 514443422 | 514443298 | - |
| chr7H | 7 | 514444203 | 514443512 | - |
| chr7H | 8 | 514444782 | 514444470 | - |
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 |
| morex | LEA | 0.844228 | 0.764726 | 0 |
| morex | EPI | 0 | 0.115997 | 0 |
| morex | ROO | 0 | 0 | 0.225814 |
| morex | ROO2 | 0 | 0 | 0 |
| morex | NOD | 0.640437 | 0 | 0 |
| morex | RAC | 0 | 0 | 0 |
| morex | INF1 | 0.860028 | 0 | 0.317698 |
| morex | INF2 | 1.42144 | 0.695409 | 0.928725 |
| morex | CAR5 | 1.112 | 0.922726 | 0 |
| morex | CAR15 | 0.391903 | 0.426529 | 0.239465 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0.370516 |
| 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_Os08g09250.2 | +1 | 8e-153 | 355 | 174/189 (92%) | protein|glyoxalase family protein, putative, expressed |
| TAIR PP10 | AT1G11840 @ ARAPORT AT1G11840.6 @ TAIR |
+1 | 4e-120 | 291 | 140/193 (73%) | Symbols: GLX1 | glyoxalase I homolog | chr1:3995928-3997518 FORWARD LENGTH=322 |
| BRACH PP3 | Bradi3g14960.1.p | +1 | 1e-121 | 364 | 178/200 (89%) | 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 (2016 bp)
>BART1_0-u54453.029 2016 150831_barley_pseudomolecules GTCAATCTTATCTTGAGTGCCGGCATGGCCCATTTGTAACCTTGCTGGGCCAGGCCCATC CATGCCGACACGCGCCCACAGCCCATCTGGCCAGCTTTAGTGGGAGGGATGCGCTTTTAC AGCCTGTGAGGAGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCT CTTCTCCTTGGAAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGA TCGTATTTCCGGGGTGAGCATCCCCAAATCCATCTCCTTCGTCCTCTCTTCCGCTTGCTT CCTTTACGCGCCGAACATCTTCCTGGCGTGGTAGCGGCTGGGCTGTGGGGGAGGTGCTCA TGGATGGATTGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGGCGCTACTTATTTATCC AGTCCTGCCGCTAGTTGCTGCTAATTTATCCAGTGATGCTGCTGTTACTCACTACTGTAT TCTTTTGCTTTTAGGGAGGTGCAGTATTTAGTTAGGATAATTTTGATAGAGGAGTGCTGT TGCTACTGTATTCTTTTGCTTTTACTTCCTTTGTTCCTAAATATAAGACCTTTTAGAGAT TTCACTATAGACTTAGTTTGGAGTGTAGATTCTTTTATTTTGCTCCGTATGGATTCTATA GTAGAATCTCTAAAAGGTTTTATATTTAGGAACGAAGGGAGTATACGATATATAGGAGAG AGTATAGACAATCTGCTGGAAAACTAGAAATTTTGAGAGGGAATCGTTTTGGACCATTGT CTATATATATATATATACACACACACACAAGCTGCTACAGATGCTCTTACCTCTTTCCTT GCTATAATAATTGAGTGCATAACAACTCTTACAGGTGACAACAGGGATGGCTACCGGTAG CGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGAT GCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAATG CTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGTT TCTTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTGT TGACAAGTACGACATTGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTATG TATTGTTTACCTGCAACATCTTACCCTTTATGTTACAGACCCTTGGGCTTGTTTGATGTC ATGGATGCAATGCAGGTGTACAAGCTGTCTGAGACAATTAAATCATCTGATTGTTGTAAG ATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTCCACTGTGATTGCCTTTGCACAAGAC CCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGGTCCGACGCCTGAGCCTCTCTGTCAA GTTATGCTTCGTGTTGGTGACCTTGATCGGGCTATCATGTTCTACGAGAAGGCCCTTGGG ATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTATAAGTACACCATTGCCATGATGGGC TATGCTGAGGAGGACAAGACCACTGTTCTGGAGTTGACATACAACTATGGTGTCACGGAA TATAACAAGGGCAATGCATATGCTCAGGTTGCTATTGGCACTGACGATGTGTACAAGAGC GCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAGGTGGAAAGATTCTAAGGCAGCCAGGG CCACTACCGGGGCTGAACACCAAAATCACCTCTTTCCTTGACCCAGATGGCTGGAAAGTG GTTCTGGTGGACTACGCAGACTTCCTCAAGGAGCTGCACTGAAGATGAGCAGGCTCAGAT GTTAGTGTCGTGAGGAGGAACCGTATGTAGCAATGGTCTGTGTGATGTAATAAAACAAAC CTCATGTAGCAAATGGTCTGTGTGCGATGTAATAAAAAGGCAGCCTCTTCCGCTCGACGA ATAAAAATAAAAGCAACTACCGCATGCCCATGCCGT
Protein Sequence (214 aa)
>BART1_0-u54453.029 214 150831_barley_pseudomolecules MYCLPATSYPLCYRPLGLFDVMDAMQVYKLSETIKSSDCCKITREPGPVKGGSTVIAFAQ DPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMKLLRKKDVPQYKYTIAMM GYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAEAVELVTKELGGKILRQP GPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH