- Transcript BART1_0-u54453.012
- Transcript IDBART1_0-u54453.012
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.012
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 514441144 | 514440919 | - |
| chr7H | 2 | 514442292 | 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 | 514444203 | 514444065 | - |
| chr7H | 10 | 514444653 | 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 | 2.44559 | 1.71206 | 2.36829 |
| morex | ETI | 0.647465 | 0 | 0.292037 |
| morex | LEA | 1.34835 | 0.229912 | 0.342479 |
| morex | EPI | 0 | 0 | 0.570427 |
| morex | ROO | 0.0000619315 | 0.012935 | 0 |
| morex | ROO2 | 0 | 0 | 0.540912 |
| morex | NOD | 1.23996 | 0 | 0.00959714 |
| morex | RAC | 1.56452 | 0 | 0 |
| morex | INF1 | 0 | 1.04198 | 0.601881 |
| morex | INF2 | 0 | 0.432242 | 0 |
| morex | CAR5 | 0 | 0.0922356 | 0.0000148466 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0 |
| morex | LOD | 0 | 0 | 0 |
| morex | PAL | 0 | 0 | 0 |
| morex | SEN | 0.709761 | 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 | +3 | 1e-152 | 436 | 208/230 (90%) | protein|glyoxalase family protein, putative, expressed |
| TAIR PP10 | AT1G11840 @ ARAPORT AT1G11840.5 @ TAIR |
+3 | 2e-121 | 354 | 168/234 (72%) | Symbols: ATGLX1, GLX1 | glyoxalase I homolog | chr1:3996045-3997290 FORWARD LENGTH=232 |
| BRACH PP3 | Bradi3g14960.1.p | +3 | 3e-157 | 443 | 211/230 (92%) | 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 (1400 bp)
>BART1_0-u54453.012 1400 150831_barley_pseudomolecules GGAGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTT GGAAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTC CGGGGTGAGCATCCCCAAATCCATCTCCTTCGTCCTCTCTTCCGCTTGCTTCCTTTACGC GCCGAACATCTTCCTGGCGTGGTAGCGGCTGGGCTGTGGGGGAGGTGCTCATGGATGGAT TGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGGCGCTACTTATTTATCCAGTCCTGCC GCTAGTTGCTGCTAATTTATCCAGTGACAACAGGGATGGCTACCGGTAGCGAAGCTGGAA AGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGATGCTGCATGCTG TTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAATGCTTTGGGATGA AGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGTTTCTTGGGTTTG GACCTGAGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTGTTGACAAGTACG ACATTGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACAAGCTGTCTG AGACAATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAG GGTCCACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGA GGGGTCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGG CTATCATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTC AGTATAAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTGG AGTTGACATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGTGCA GGTTGCTATTGGCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAA AGAACTAGGTGGAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAAT CACCTCTTTCCTTGACCCAGATGGCTGGAAAGTGGTTCTGGTGGACTACGCAGACTTCCT CAAGGAGCTGCACTGAAGATGAGCAGGCTCAGATGTTAGTGTCGTGAGGAGGAACCGTAT GTAGCAATGGTCTGTGTGATGTAATAAAACAAACCTCATGTAGCAAATGGTCTGTGTGCG ATGTAATAAAAAGGCAGCCTCTTCCGCTCGACGAATAAAAATAAAAGCAACTACCGCATG CCCATGCCGTCATTNNNNNN
Protein Sequence (250 aa)
>BART1_0-u54453.012 250 150831_barley_pseudomolecules MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMK LLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQCRLLLALTMCTRA PKQLSWLPKN