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Tomato miRNA M00044
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| GGAAUCUUGAUGAUGCUGCAG | 21 | miR172 | S17731097 | 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) | 58 | 5.65 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 234 | 31.02 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 14 | 1.64 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 1 | 0.07 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 1 | 0.25 |
| 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 | 1 | 0.83 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 21 | 11.91 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 244 | 75.28 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 85 | 22.31 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 18 | 5.39 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 544 | 164.64 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 17 | 5.12 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| cme-miR172a | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
| csi-miR172c | -GGAATCTTGATGATGCTGCAG x||||||||||||||||||||| TGGAATCTTGATGATGCTGCAG |
| gma-miR172c | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
| gma-miR172d | GGAATCTTGATGATGCTGCAG--- |||||||||||||||||||||xxx GGAATCTTGATGATGCTGCAGCAG |
| gma-miR172e | GGAATCTTGATGATGCTGCAG--- |||||||||||||||||||||xxx GGAATCTTGATGATGCTGCAGCAG |
| mdm-miR172l | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
| ptc-miR172g-3p | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
| ptc-miR172h-3p | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
| rco-miR172 | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
| vvi-miR172c | GGAATCTTGATGATGCTGCAG ||||||||||||||||||||| GGAATCTTGATGATGCTGCAG |
Precursor of miRNA M00044
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch05 | 62347699 | 62347793 | + | GUGGAGCAUCAUCAAGAUUC ACAUAGCUAUAUUAGGGCUU UUAUAAUUUUUAAAAACCCU ACGGGCGAUGUGUGGGAAUC UUGAUGAUGCUGCAG |
-42.70 | NA | structure |
