- Transcript BART1_0-u54453.036
- Transcript IDBART1_0-u54453.036
- Gene IDBART1_0-u54453
Barley RTD
Exon Structure of BART1_0-u54453.036
| Chromosome | Exon | Start | Stop | Direction |
|---|---|---|---|---|
| chr7H | 1 | 514442287 | 514441813 | - |
| chr7H | 2 | 514442474 | 514442367 | - |
| chr7H | 3 | 514442603 | 514442556 | - |
| chr7H | 4 | 514442934 | 514442719 | - |
| chr7H | 5 | 514443422 | 514443015 | - |
| chr7H | 6 | 514443632 | 514443512 | - |
| chr7H | 7 | 514444645 | 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 | 1.33436 | 3.89744 |
| morex | ETI | 1.1844 | 3.33492 | 1.08903 |
| morex | LEA | 0.482955 | 3.17754 | 2.23094 |
| morex | EPI | 0.212061 | 0.445538 | 2.04599 |
| morex | ROO | 0 | 3.26192 | 1.34936 |
| morex | ROO2 | 0.354681 | 0.47001 | 0.0000596336 |
| morex | NOD | 2.30719 | 2.79566 | 0 |
| morex | RAC | 3.42321 | 0.94121 | 4.08226 |
| morex | INF1 | 1.11803 | 1.12885 | 0 |
| morex | INF2 | 0 | 3.9715 | 0.0000281682 |
| morex | CAR5 | 2.91453 | 3.62025 | 0.577822 |
| morex | CAR15 | 0 | 0 | 0 |
| morex | LEM | 0.964178 | 0.415195 | 0.487371 |
| morex | LOD | 2.31931 | 3.676 | 2.45449 |
| morex | PAL | 0.00000000678073 | 0.718577 | 1.47232 |
| morex | SEN | 1.64146 | 0.572018 | 0.727168 |
Homology to Model Species (BLASTX to E-value < 1e-30)
| Database | Hit | Frame | E-value | Score | % Identity | Description |
|---|---|---|---|---|---|---|
| Rice PP7 | LOC_Os08g09250.1 | +1 | 2e-131 | 383 | 189/217 (87%) | protein|glyoxalase family protein, putative, expressed |
| TAIR PP10 | AT1G11840 @ ARAPORT AT1G11840.4 @ TAIR |
+1 | 5e-102 | 307 | 146/200 (73%) | Symbols: ATGLX1, GLX1 | glyoxalase I homolog | chr1:3996045-3997518 FORWARD LENGTH=283 |
| BRACH PP3 | Bradi3g14960.1.p | +1 | 1e-131 | 384 | 185/207 (89%) | 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 (1492 bp)
>BART1_0-u54453.036 1492 150831_barley_pseudomolecules CACGTCGCCATCAACGCAATCATAAGTATCGGTGCCGGACTCTCTTCTCCTTGGAAGCCT CTAGACTGAGCTCCTCATCAGCGTGGGACGGATCTCTGCCGGATCGTATTTCCGGGGGAT GGCTACCGGTAGCGAAGCTGGAAAGTCCGCCGAGGCCGTGCTGGAATGGCCTAAGCAGGA CAAAAAGAGGATGCTGCATGCTGTTTACCGTGTGGGAGATCTTGACAAAACCATTAAGTG TTACACAGAATGCTTTGGGATGAAGCTGCTGAGGAAAAGAGATGTCCCAGAAGAGAAGTA CACCAATGCGTTTCTTGGGTTTGGACCTGAGGATACTAATTTTGCACTTGAGCTGACTTA CAGTATGTTCATCGTCCACTCACAGTTGTTTCTAATGCAGCCGGTTTGATATTCTTGTTA ATGTTTGGGCAAAGTGTGTATCCACCTCAGTGAGAAGACTGGCAAACTAACGGGGCCTTG TTCTTCTCTCTACATATGAACCGATAAACTATTTTGTGGGACTATACTGTCATTGTTTGC CACCTCCTGTTGTGCTAATATGCTCGTTCTCGTTTGATAGATTATGGTGTTGACAAGTAC GACATTGGAGCGGGCTTTGGACATTTTGCCATCGCAAATGAGGATGTGTACAAGCTGTCT GAGACAATTAAATCATCTGATTGTTGTAAGATCACTCGTGAACCTGGTCCTGTCAAGGGA GGGTCCACTGTGATTGCCTTTGCACAAGACCCAGATGGTTACTTGTTTGAGCTTATCCAG AGGGGTCCGACGCCTGAGCCTCTCTGTCAAGTTATGCTTCGTGTTGGTGACCTTGATCGG GCTATCATGTTCTACGAGAAGGCCCTTGGGATGAAGCTTCTGAGGAAGAAGGATGTGCCT CAGTATAAGTACACCATTGCCATGATGGGCTATGCTGAGGAGGACAAGACCACTGTTCTG GAGTTGACATACAACTATGGTGTCACGGAATATAACAAGGGCAATGCATATGCTCAGGTT GCTATTGGCACTGACGATGTGTACAAGAGCGCCGAAGCAGTTGAGCTGGTTACCAAAGAA CTAGGTGGAAAGATTCTAAGGCAGCCAGGGCCACTACCGGGGCTGAACACCAAAATCACC TCTTTCCTTGACCCAGATGGCTGGAAAGTGGTATGTCTTCTGGATGTCTTGTGCATAACA CTGCTTTATTTGAATCGAGGGGGTCATTAACAGTTAATTATGAATTCAAGATGTGCTTGC TGTAGTCAATGATTGGTTTAAAATTTGAAGAGCTTACCGTAGTCAATGTACTTTGGCAGT TAAATGAATTAATTTGAAACGAAACGAAGGACAATTCAATTGGCCTGCACAACTACTGTA GTCACAGCTTAATTGCTAGTTCCTCTCTAGAAACGAACTATTGCCAGTTGGTACATACTC CCTCCTGTCTCTGAAAAGAAGGCCTATAAATTTGTCTGAAGTCAAACCGTAC
Protein Sequence (138 aa)
>BART1_0-u54453.036 138 150831_barley_pseudomolecules MLRVGDLDRAIMFYEKALGMKLLRKKDVPQYKYTIAMMGYAEEDKTTVLELTYNYGVTEY NKGNAYAQVAIGTDDVYKSAEAVELVTKELGGKILRQPGPLPGLNTKITSFLDPDGWKVV CLLDVLCITLLYLNRGGH