- Transcript BART1_0-u54453.002
- Transcript IDBART1_0-u54453.002
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.002
| 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 | 514443642 | 514443512 | - |
| chr7H | 9 | 514444846 | 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 | 459.974 | 456.614 | 373.67 |
| morex | ETI | 170.858 | 228.797 | 216.186 |
| morex | LEA | 95.1887 | 87.3449 | 98.874 |
| morex | EPI | 23.2397 | 23.0063 | 55.3276 |
| morex | ROO | 121.014 | 168.505 | 99.7694 |
| morex | ROO2 | 314.498 | 334.116 | 367.844 |
| morex | NOD | 270.785 | 276.632 | 46.0357 |
| morex | RAC | 466.837 | 540.944 | 683.421 |
| morex | INF1 | 239.598 | 244.534 | 197.442 |
| morex | INF2 | 255.591 | 266.959 | 333.05 |
| morex | CAR5 | 695.004 | 725.68 | 751.161 |
| morex | CAR15 | 308.157 | 307.113 | 361.973 |
| morex | LEM | 169.797 | 148.691 | 219.119 |
| morex | LOD | 325.085 | 698.349 | 417.683 |
| morex | PAL | 201.684 | 239.02 | 338.918 |
| morex | SEN | 112.443 | 163.565 | 186.857 |
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 | 8e-156 | 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 (1392 bp)
>BART1_0-u54453.002 1392 150831_barley_pseudomolecules AGGGGATGTGCGAGTGGAGATGCTCTTAAGGCTCCCCGAAGAAGCGCTCTTTGCTTCCGT GCATGTCAATCTTATCTTGAGTGCCGGCATGGCCCATTTGTAACCTTGCTGGGCCAGGCC CATCCATGCCGACACGCGCCCACAGCCCATCTGGCCAGCTTTAGTGGGAGGGATGCGCTT TTACAGCCTGTGAGGAGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGA CTCTCTTCTCCTTGGAAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGC CGGATCGTATTTCCGGGGTGACAACAGGGATGGCTACCGGTAGCGAAGCTGGAAAGTCCG CCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGATGCTGCATGCTGTTTACC GTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAATGCTTTGGGATGAAGCTGC TGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGTTTCTTGGGTTTGGACCTG AGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTGTTGACAAGTACGACATTG GAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACAAGCTGTCTGAGACAA TTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGAGGGTCCA CTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAGAGGGGTC CGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGGGCTATCA TGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCTCAGTATA AGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTGGAGTTGA CATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTTGCTATTG GCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAACTAGGTG GAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACCTCTTTCC TTGACCCAGATGGCTGGAAAGTGGTTCTGGTGGACTACGCAGACTTCCTCAAGGAGCTGC ACTGAAGATGAGCAGGCTCAGATGTTAGTGTCGTGAGGAGGAACCGTATGTAGCAATGGT CTGTGTGATGTAATAAAACAAACCTCATGTAGCAAATGGTCTGTGTGCGATGTAATAAAA AGGCAGCCTCTTCCGCTCGACGAATAAAAATAAAAGCAACTACCGCATGCCCATGCCGTC ATTNNNNNNNNN
Protein Sequence (291 aa)
>BART1_0-u54453.002 291 150831_barley_pseudomolecules MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMK LLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAE AVELVTKELGGKILRQPGPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH