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Tomato miRNA M00054
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| AAGCUCAGGAGGGAUAGCGCC | 21 | miR390 | S02665742 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0739 | Solanum lycopersicum | Ailsa Craig | fruit, red ripe (52 days after anthesis) | 22 | 2.14 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 15 | 1.99 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 14 | 1.64 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 3 | 0.65 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 303 | 22.35 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 4 | 1.67 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 19 | 19.43 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 15 | 3.78 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 9 | 2.55 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 4 | 1.02 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 8 | 3.85 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 7 | 5.82 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 87 | 49.33 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 2595 | 800.67 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 485 | 127.33 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 8 | 2.39 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 2025 | 612.85 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 35 | 10.55 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aly-miR390a-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| aly-miR390b-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ath-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ath-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| bdi-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| bna-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| bna-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| bna-miR390c | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| cme-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| cme-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| cme-miR390c | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| cme-miR390d | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| csi-miR390 | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ghr-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ghr-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ghr-miR390c | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| gma-miR390a-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| gma-miR390f | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| gma-miR390g | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| hex-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| hex-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mdm-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mdm-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mdm-miR390c | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mdm-miR390d | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mdm-miR390e | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mdm-miR390f | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| mtr-miR390 | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| nta-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| nta-miR390c | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| osa-miR390-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ppt-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ppt-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ptc-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ptc-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ptc-miR390c | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| ptc-miR390d-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| rco-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| rco-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| sbi-miR390 | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| tcc-miR390a | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| tcc-miR390b | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| vvi-miR390 | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| zma-miR390a-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
| zma-miR390b-5p | AAGCTCAGGAGGGATAGCGCC ||||||||||||||||||||| AAGCTCAGGAGGGATAGCGCC |
Precursor of miRNA M00054
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch09 | 8388200 | 8388276 | + | AAGCUCAGGAGGGAUAGCGC CAUGGAUGACUCAAUUCGAU UUUUGUACACAUCUUUAGCG CUAUCCAUCCUGAGUUU |
-38.40 | NA | structure |
| SL2.40ch06 | 1372272 | 1372127 | - | AAGCUCAGGAGGGAUAGCGC CAUGAAAAAUAAUAUGAUGU UUUCUUUUUAAUUAUUUUAU UGGUACAUAAAUUCAUCUUU UUAAUUGUUAUUAUUUUCGG UAUAAUAAAUUCAUCAAUUA UAUUUGGCGCUAUCCAUCCU GAGUUC |
-44.10 | NA | structure |
