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Tomato miRNA M00062
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| GUUCAAUAAAGCUGUGGGAAG | 21 | miR396 | S19864877 | 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) | 6302 | 614.1 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 7295 | 966.92 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 37715 | 4405.95 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 9850 | 2121.13 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 62 | 4.57 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 241 | 185.72 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 291 | 220.75 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 139 | 99.03 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 331 | 243.77 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 577 | 360.28 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 131 | 83.45 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 417 | 274.82 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 278 | 169.95 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 174 | 104.16 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 150 | 146.36 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 254 | 148.28 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 203 | 199.13 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 122 | 86.28 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 623 | 678.2 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 277 | 264.66 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 128 | 369.76 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 168 | 117.04 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 104 | 138.78 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 24 | 10.04 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 6 | 6.14 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 120 | 30.2 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 34 | 9.64 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 213 | 54.49 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 971 | 467.73 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 274 | 227.62 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 13 | 7.37 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 97 | 29.93 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 116 | 30.45 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 310 | 92.79 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 300 | 90.79 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 237 | 71.42 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aly-miR396a-3p | GTTCAATAAAGCTGTGGGAAG ||||||||||||||||||||| GTTCAATAAAGCTGTGGGAAG |
| gma-miR396i-3p | GTTCAATAAAGCTGTGGGAAG ||||||||||||||||||||| GTTCAATAAAGCTGTGGGAAG |
Precursor of miRNA M00062
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch00 | 12537518 | 12537619 | + | UUUUCCACAGCUUUCUUGAA CUGCAUCUACAAUUUCAAUU CAUUAUUGAAAAAGAAAAAA UUGAUUCAUAUUGUUGUUGC GGUUCAAUAAAGCUGUGGGA AG | -42.20 | NA | structure |
| SL2.40ch12 | 2905792 | 2905659 | - | UUUUCCACAGCUUUCUUGAA CUGCAUACAUAUAACAAAAA AAUCUGAUUUUUUUUUGAUU UUUUUUUACUUUUAUAAAGA AAAAAUUUAGAUGGAAAGAA UUAAAUUGUUGCGGUUCAAU AAAGCUGUGGGAAG | -44.10 | NA | structure |
