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Tomato miRNA M00035
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UUUCGGACCAGGCUUCAUUCCC | 22 | miR166 | S26186508 | 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) | 1 | 0.1 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 3 | 0.35 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 66 | 14.21 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 697 | 51.41 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 68 | 52.4 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 27 | 20.48 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 9 | 6.41 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 26 | 19.15 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 40 | 24.98 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 31 | 19.75 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 36 | 23.73 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 33 | 20.17 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 37 | 22.15 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 13 | 12.68 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 28 | 16.35 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 17 | 16.68 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 23 | 16.27 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 44 | 47.9 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 29 | 27.71 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 15 | 43.33 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 26 | 18.11 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 46 | 61.38 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 22 | 9.2 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 3 | 3.07 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 33 | 8.31 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 1 | 0.28 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 25 | 6.4 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 8 | 3.85 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 2 | 1.66 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 20 | 11.34 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 695 | 214.44 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 75 | 19.69 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 38 | 11.37 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 357 | 108.04 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 25 | 7.53 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| cme-miR166g | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| csi-miR166c | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| gma-miR166p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| gma-miR166q | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| gma-miR166r | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| gma-miR166s | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| gma-miR166t | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166a | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166b | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166c | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166d | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166h | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166i | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| sbi-miR166j | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| tcc-miR166b | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166b-3p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166c-3p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166d-3p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166e | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166f | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166g-3p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166h-3p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
| zma-miR166i-3p | TTTCGGACCAGGCTTCATTCCC xx|||||||||||||||||||| --TCGGACCAGGCTTCATTCCC |
Precursor of miRNA M00035
| 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 |
| SL2.40ch06 | 2516388 | 2516290 | - | GAGAAUGUCGUCUGGUUCGA GAUCUUUCAUAAGAAAGGUA AAUGAAUGACAAGUUUUCAU AUAUGUAUCGUGAAUGAUUU CGGACCAGGCUUCAUUCCC |
-39.50 | NA | structure |
| SL2.40ch09 | 64446823 | 64446635 | - | GAGAAUGUUGUCUGGUUCGA AAUCUUUCUAUAGAAAAAUC AGUGGUGGAUUCAGUUAUGA GUUUCAAGAUCGUUAAAUCU UAUAUAUGUACAAAAAUAAG UACAAUAUAUAUUUUUAGAC CCUAAAAUGUCGAAUAUAUA UUCUGAAUUCGUCAAUUUAU UGAGUGAUUUCGGACCAGGC UUCAUUCCC |
-56.20 | miRNA* | structure |
