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Tomato miRNA M00061
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UUCCACAGCUUUCUUGAACUU | 21 | miR396 | S25045581 | 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) | 1088 | 106.02 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 482 | 63.89 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 9616 | 1123.36 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 7772 | 1673.65 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 389 | 28.69 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 123 | 94.79 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 140 | 106.2 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 81 | 57.71 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 78 | 57.45 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 267 | 166.72 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 166 | 105.75 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 186 | 122.58 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 139 | 84.98 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 88 | 52.68 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 356 | 347.35 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 597 | 348.51 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 584 | 572.87 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 567 | 401 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 344 | 374.48 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 372 | 355.43 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 87 | 251.32 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 289 | 201.33 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 124 | 165.47 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 10 | 4.18 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 12 | 12.27 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 55 | 13.84 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 28 | 7.94 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 98 | 25.07 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 42 | 20.23 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 5 | 4.15 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 11 | 6.24 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 39 | 12.03 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 236 | 61.96 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 432 | 129.3 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 402 | 121.66 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 376 | 113.3 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aly-miR396b-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| aqc-miR396b | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| ath-miR396b | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| bcy-miR396b | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| bdi-miR396e | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| bgy-miR396b | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| bna-miR396a | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| cca-miR396a-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| ccl-miR396 | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| cme-miR396a | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| cme-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| cme-miR396d | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| gma-miR396b-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| gma-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| mdm-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| mdm-miR396d | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| mdm-miR396e | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| mtr-miR396a-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| nta-miR396b | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| nta-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| osa-miR396c-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| pta-miR396 | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| ptc-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| ptc-miR396d | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| ptc-miR396e-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| rco-miR396 | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| sbi-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| tcc-miR396c | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| tcc-miR396e | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| zma-miR396e-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
| zma-miR396f-5p | TTCCACAGCTTTCTTGAACTT ||||||||||||||||||||| TTCCACAGCTTTCTTGAACTT |
Precursor of miRNA M00061
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch07 | 2628873 | 2628773 | - | UUCCACAGCUUUCUUGAACU UCUUCUUGCUAAAUUUUGAU CUCUAAAUUGAUAAUUUUGA GAUGAGAUUUGAAGCUAUGA AAGUCCAAGAAAGCUGUGGG A | -40.20 | NA | structure |
