- Transcript BART1_0-u54453.019
- Transcript IDBART1_0-u54453.019
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.019
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 514441144 | 514440921 | - |
| chr7H | 2 | 514442287 | 514442135 | - |
| chr7H | 3 | 514442474 | 514442367 | - |
| chr7H | 4 | 514442603 | 514442556 | - |
| chr7H | 5 | 514442934 | 514442719 | - |
| chr7H | 6 | 514443079 | 514443015 | - |
| chr7H | 7 | 514443422 | 514443298 | - |
| chr7H | 8 | 514443642 | 514443512 | - |
| chr7H | 9 | 514444663 | 514444164 | - |
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 | 1.151 | 0.353342 | 1.29655 |
| morex | LEA | 0 | 0.152252 | 0.216698 |
| morex | EPI | 0.820589 | 0.907592 | 0.691495 |
| morex | ROO | 0 | 0 | 0 |
| morex | ROO2 | 0 | 0.322778 | 0 |
| morex | NOD | 0 | 0.581602 | 0 |
| morex | RAC | 0.214599 | 1.32265 | 0 |
| morex | INF1 | 0 | 0 | 0 |
| morex | INF2 | 0.435596 | 0 | 0 |
| morex | CAR5 | 0 | 0 | 0.942179 |
| morex | CAR15 | 0 | 0.17463 | 0.373332 |
| morex | LEM | 0.174254 | 0.118963 | 0.000000223173 |
| morex | LOD | 0 | 0.497678 | 0.0598292 |
| morex | PAL | 0 | 0.609523 | 0.608438 |
| morex | SEN | 0.785425 | 0.839864 | 0.00000000594901 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g09250.2 | +3 | 0.0 | 555 | 269/292 (92%) | protein|glyoxalase family protein, putative, expressed |
| TAIR PP10 | AT1G11840 @ ARAPORT AT1G11840.4 @ TAIR |
+3 | 7e-155 | 443 | 209/281 (74%) | Symbols: ATGLX1, GLX1 | glyoxalase I homolog | chr1:3996045-3997518 FORWARD LENGTH=283 |
| BRACH PP3 | Bradi3g14960.1.p | +3 | 0.0 | 570 | 275/292 (94%) | 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 (1570 bp)
>BART1_0-u54453.019 1570 150831_barley_pseudomolecules CAGCCTGTGAGGAGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTC TCTTCTCCTTGGAAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGG ATCGTATTTCCGGGGTGAGCATCCCCAAATCCATCTCCTTCGTCCTCTCTTCCGCTTGCT TCCTTTACGCGCCGGTGCGTAGTTTTCCGATTCGCCGTTCCTTTAATGTCTGCTTGTAGA TTTCTTACAGGTTTCTGATAGATGGCCTCCTTCCCTTTCTTATTTGGATTCGTATCTGTA TGTAGTTTGATTTGTTTCAAGCACTGCGTCTGGGGAGGATTTTTGGAAAACAGAGTGAAT CATGGGAAAACCCCCGATCCGGATTTTTTAGAACCACCCCCAATCCAACTATGCGTGCAG TTTGCTGGTTTTTATTTTTATTTTTACTTTGATTTAGCAGAACATCTTCCTGGCGTGGTA GCGGCTGGGCTGTGGGGGAGGTGACAACAGGGATGGCTACCGGTAGCGAAGCTGGAAAGT CCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGATGCTGCATGCTGTTT ACCGTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAATGCTTTGGGATGAAGC TGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGTTTCTTGGGTTTGGAC CTGAGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTGTTGACAAGTACGACA TTGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACAAGCTGTCTGAGA CAATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGT CCACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGG GTCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTA TCATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGT ATAAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTGGAGT TGACATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTTGCTA TTGGCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAG GTGGAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACCTCTT TCCTTGACCCAGATGGCTGGAAAGTGGTTCTGGTGGACTACGCAGACTTCCTCAAGGAGC TGCACTGAAGATGAGCAGGCTCAGATGTTAGTGTCGTGAGGAGGAACCGTATGTAGCAAT GGTCTGTGTGATGTAATAAAACAAACCTCATGTAGCAAATGGTCTGTGTGCGATGTAATA AAAAGGCAGCCTCTTCCGCTCGACGAATAAAAATAAAAGCAACTACCGCATGCCCATGCC GTCATTNNNN
Protein Sequence (291 aa)
>BART1_0-u54453.019 291 150831_barley_pseudomolecules MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMK LLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAE AVELVTKELGGKILRQPGPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH