- Transcript BART1_0-u54453.003
- Transcript IDBART1_0-u54453.003
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.003
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 514441144 | 514440916 | - |
| 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 | 514444203 | 514443512 | - |
| chr7H | 9 | 514444783 | 514444530 | - |
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 | 2.81004 | 12.188 | 9.12177 |
| morex | ETI | 6.37184 | 4.62926 | 3.7279 |
| morex | LEA | 7.64751 | 5.1536 | 5.89896 |
| morex | EPI | 3.03123 | 2.47864 | 3.73499 |
| morex | ROO | 4.9339 | 2.9085 | 0.820106 |
| morex | ROO2 | 2.70416 | 2.31201 | 1.1982 |
| morex | NOD | 2.39629 | 2.06067 | 1.85486 |
| morex | RAC | 2.12683 | 4.4711 | 1.39007 |
| morex | INF1 | 4.08171 | 4.77727 | 5.80903 |
| morex | INF2 | 8.99319 | 5.37711 | 3.64475 |
| morex | CAR5 | 3.52683 | 2.63295 | 1.59227 |
| morex | CAR15 | 0.321837 | 0.96001 | 0.516374 |
| morex | LEM | 2.59186 | 1.40089 | 0.752703 |
| morex | LOD | 4.36079 | 3.52987 | 5.3598 |
| morex | PAL | 4.95822 | 0.86586 | 2.14269 |
| morex | SEN | 0.519877 | 1.25956 | 1.55523 |
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 | 4e-153 | 442 | 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 (1890 bp)
>BART1_0-u54453.003 1890 150831_barley_pseudomolecules TGTCAATCTTATCTTGAGTGCCGGCATGGCCCATTTGTAACCTTGCTGGGCCAGGCCCAT CCATGCCGACACGCGCCCACAGCCCATCTGGCCAGCTTTAGTGGGAGGGATGCGCTTTTA CAGCCTGTGAGGAGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTC TCTTCTCCTTGGAAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGG ATCGTATTTCCGGGAACATCTTCCTGGCGTGGTAGCGGCTGGGCTGTGGGGGAGGTGCTC ATGGATGGATTGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGGCGCTACTTATTTATC CAGTCCTGCCGCTAGTTGCTGCTAATTTATCCAGTGATGCTGCTGTTACTCACTACTGTA TTCTTTTGCTTTTAGGGAGGTGCAGTATTTAGTTAGGATAATTTTGATAGAGGAGTGCTG TTGCTACTGTATTCTTTTGCTTTTACTTCCTTTGTTCCTAAATATAAGACCTTTTAGAGA TTTCACTATAGACTTAGTTTGGAGTGTAGATTCTTTTATTTTGCTCCGTATGGATTCTAT AGTAGAATCTCTAAAAGGTTTTATATTTAGGAACGAAGGGAGTATACGATATATAGGAGA GAGTATAGACAATCTGCTGGAAAACTAGAAATTTTGAGAGGGAATCGTTTTGGACCATTG TCTATATATATATATATACACACACACACAAGCTGCTACAGATGCTCTTACCTCTTTCCT TGCTATAATAATTGAGTGCATAACAACTCTTACAGGTGACAACAGGGATGGCTACCGGTA GCGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGA TGCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAAT GCTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGT TTCTTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTG TTGACAAGTACGACATTGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGT ACAAGCTGTCTGAGACAATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTC CTGTCAAGGGAGGGTCCACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTG AGCTTATCCAGAGGGGTCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTG ACCTTGATCGGGCTATCATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGA AGGATGTGCCTCAGTATAAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGA CCACTGTTCTGGAGTTGACATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCAT ATGCTCAGGTTGCTATTGGCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGG TTACCAAAGAACTAGGTGGAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACA CCAAAATCACCTCTTTCCTTGACCCAGATGGCTGGAAAGTGGTTCTGGTGGACTACGCAG ACTTCCTCAAGGAGCTGCACTGAAGATGAGCAGGCTCAGATGTTAGTGTCGTGAGGAGGA ACCGTATGTAGCAATGGTCTGTGTGATGTAATAAAACAAACCTCATGTAGCAAATGGTCT GTGTGCGATGTAATAAAAAGGCAGCCTCTTCCGCTCGACGAATAAAAATAAAAGCAACTA CCGCATGCCCATGCCGTCATTNNNNNNNNN
Protein Sequence (291 aa)
>BART1_0-u54453.003 291 150831_barley_pseudomolecules MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMK LLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAE AVELVTKELGGKILRQPGPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH