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Tomato miRNA M00031
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UUCGGACCAGGCUUCAUUCCC | 21 | miR166 | S25121238 | 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) | 23 | 2.24 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 13 | 1.72 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 126 | 14.72 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 941 | 202.64 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 5489 | 404.87 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 371 | 285.9 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 270 | 204.82 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 177 | 126.1 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 156 | 114.89 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 366 | 228.53 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 248 | 157.99 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 250 | 164.76 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 333 | 203.58 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 322 | 192.75 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 320 | 312.22 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 849 | 495.62 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 333 | 326.65 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 1154 | 816.15 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 482 | 524.71 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 585 | 558.94 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 263 | 759.74 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 136 | 94.74 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 229 | 305.59 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 71 | 29.69 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 20 | 20.45 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 390 | 98.16 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 42 | 11.9 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 394 | 100.8 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 106 | 51.06 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 40 | 33.23 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 30 | 17.01 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 484 | 149.34 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 332 | 87.16 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 1226 | 366.96 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 1355 | 410.08 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 3077 | 927.23 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| bdi-miR166e | TTCGGACCAGGCTTCATTCCC x|||||||||||||||||||| CTCGGACCAGGCTTCATTCCC |
| ppt-miR166j | TTCGGACCAGGCTTCATTCCC |x||||||||||||||||||| TCCGGACCAGGCTTCATTCCC |
| ppt-miR166k | TTCGGACCAGGCTTCATTCCC |x||||||||||||||||||| TCCGGACCAGGCTTCATTCCC |
| ppt-miR166l | TTCGGACCAGGCTTCATTCCC |x||||||||||||||||||| TCCGGACCAGGCTTCATTCCC |
Precursor of miRNA M00031
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch06 | 33130287 | 33130382 | + | GGGAAUGUUGUUUGGUUCGA AAUCAUUCAAACAAAUUAAA AUUCAUGCAUCUCGAUGAUC GAUGAAUUGAAUAAUUUCGG ACCAGGCUUCAUUCCC | -37.80 | NA | structure |
| SL2.40ch09 | 64446823 | 64446635 | - | GAGAAUGUUGUCUGGUUCGA AAUCUUUCUAUAGAAAAAUC AGUGGUGGAUUCAGUUAUGA GUUUCAAGAUCGUUAAAUCU UAUAUAUGUACAAAAAUAAG UACAAUAUAUAUUUUUAGAC CCUAAAAUGUCGAAUAUAUA UUCUGAAUUCGUCAAUUUAU UGAGUGAUUUCGGACCAGGC UUCAUUCCC | -56.20 | miRNA* | structure |
| SL2.40ch06 | 2516388 | 2516290 | - | GAGAAUGUCGUCUGGUUCGA GAUCUUUCAUAAGAAAGGUA AAUGAAUGACAAGUUUUCAU AUAUGUAUCGUGAAUGAUUU CGGACCAGGCUUCAUUCCC | -39.50 | NA | structure |
