- Transcript BART1_0-u54453.004
- Transcript IDBART1_0-u54453.004
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.004
| 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 | 514444203 | 514444065 | - |
| chr7H | 10 | 514444782 | 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 | 0 | 0.411599 | 0 |
| morex | ETI | 0 | 0.000000416451 | 3.69435 |
| morex | LEA | 1.16749 | 0 | 0 |
| morex | EPI | 0.925258 | 0 | 0 |
| morex | ROO | 0 | 0.234772 | 0.67128 |
| morex | ROO2 | 0 | 0.0020883 | 0.581892 |
| morex | NOD | 0 | 0 | 0.706204 |
| morex | RAC | 0.175711 | 0 | 0.00146221 |
| morex | INF1 | 0 | 0.691486 | 0 |
| morex | INF2 | 0 | 1.45632 | 0.858335 |
| morex | CAR5 | 0.00594254 | 0 | 1.32729 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0 | 0 | 0.454232 |
| morex | LOD | 3.63347 | 0.109023 | 0 |
| morex | PAL | 0.399508 | 0 | 0.363883 |
| morex | SEN | 0 | 0.544566 | 0.604208 |
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 | 3e-155 | 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 (1467 bp)
>BART1_0-u54453.004 1467 150831_barley_pseudomolecules GTCAATCTTATCTTGAGTGCCGGCATGGCCCATTTGTAACCTTGCTGGGCCAGGCCCATC CATGCCGACACGCGCCCACAGCCCATCTGGCCAGCTTTAGTGGGAGGGATGCGCTTTTAC AGCCTGTGAGGAGGTACCACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCT CTTCTCCTTGGAAGCCTCTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGA TCGTATTTCCGGGAACATCTTCCTGGCGTGGTAGCGGCTGGGCTGTGGGGGAGGTGCTCA TGGATGGATTGGGATCCTTTCGCCTCAGCGCAGGGATTTGGGGGCGCTACTTATTTATCC AGTCCTGCCGCTAGTTGCTGCTAATTTATCCAGTGACAACAGGGATGGCTACCGGTAGCG AAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGACAAAAAGAGGATGC TGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTGTTACACAGAATGCT TTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTACACCAATGCGTTTC TTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGCTGACTTACAATTATGGTGTTG ACAAGTACGACATTGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACA AGCTGTCTGAGACAATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTG TCAAGGGAGGGTCCACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGC TTATCCAGAGGGGTCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACC TTGATCGGGCTATCATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGG ATGTGCCTCAGTATAAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCA CTGTTCTGGAGTTGACATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCATATG CTCAGGTTGCTATTGGCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTA CCAAAGAACTAGGTGGAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCA AAATCACCTCTTTCCTTGACCCAGATGGCTGGAAAGTGGTTCTGGTGGACTACGCAGACT TCCTCAAGGAGCTGCACTGAAGATGAGCAGGCTCAGATGTTAGTGTCGTGAGGAGGAACC GTATGTAGCAATGGTCTGTGTGATGTAATAAAACAAACCTCATGTAGCAAATGGTCTGTG TGCGATGTAATAAAAAGGCAGCCTCTTCCGCTCGACGAATAAAAATAAAAGCAACTACCG CATGCCCATGCCGTCATTNNNNNNNNN
Protein Sequence (291 aa)
>BART1_0-u54453.004 291 150831_barley_pseudomolecules MATGSEAGKSAEAVLEWPKQDKKRMLHAVYRVGDLDKTIKCYTECFGMKLLRKRDVPEEK YTNAFLGFGPEDTNFALELTYNYGVDKYDIGAGFGHFAIANEDVYKLSETIKSSDCCKIT REPGPVKGGSTVIAFAQDPDGYLFELIQRGPTPEPLCQVMLRVGDLDRAIMFYEKALGMK LLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEYNKGNAYAQVAIGTDDVYKSAE AVELVTKELGGKILRQPGPLPGLNTKITSFLDPDGWKVVLVDYADFLKELH