 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
Tomato miRNA M00052
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UUGGACUGAAGGGAGCUCCCU | 21 | miR319 | S25581453 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 8 | 0.93 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 22 | 4.74 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 1 | 0.07 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 8551 | 6589.53 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 423 | 320.89 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 131 | 93.33 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 1261 | 928.7 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 477 | 297.84 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 1848 | 1177.25 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 3615 | 2382.47 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 3849 | 2353.07 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 4436 | 2655.45 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 266 | 259.54 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 646 | 377.12 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 104 | 102.02 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 55 | 38.9 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 6048 | 6583.87 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 3971 | 3794.12 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 2262 | 6534.31 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 2082 | 1450.41 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 2513 | 3353.43 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 20 | 8.36 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 1 | 1.02 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 60 | 15.1 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 25 | 7.09 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 26 | 6.65 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 87 | 41.91 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 34 | 28.25 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 58 | 32.89 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 21 | 6.48 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 6885 | 1807.5 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 8 | 2.42 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aau-miR319 | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| aly-miR319a-3p | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| aly-miR319b-3p | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| amg-miR319 | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| aqc-miR319 | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| ath-miR319a | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| ath-miR319b | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| cca-miR319 | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319h | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319j | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319k | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319m | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| hbr-miR319 | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319a | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319b | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| nta-miR319a | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| nta-miR319b | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| rco-miR319a | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| rco-miR319b | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| rco-miR319c | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| tae-miR319 | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vun-miR319a | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319b | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319c | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319f | TTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
Precursor of miRNA M00052
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch06 | 1551733 | 1551904 | + | AGAGAGCUUCCUUUAGUCCA CUCAUAGGUAGACGAAGGAU UUGAAUUAUCUCCCGACUCA UUCAUUCAAACGCAAUAGGA AGUAUGUAAUCUUAUACUAU UGUGAAUGUGUGAAUGAUGC GGGAGAUAAAUUCUCUCCUU UUUAUCUGUGCUUGGACUGA AGGGAGCUCCCU | -87.30 | NA | structure |
| SL2.40ch05 | 2723949 | 2723775 | - | AAGGAGCUCUCUCCGGUCCA GUCCGAGGCACUCAAAGGCU AAAAACACAGCUGACGACUC GUUGAUUCUCAAACAUAUCA AGAAGCAUUUUUUGAAAUUG GUGUGUUUAAGAUUCAACGA UGCGUGAGCUAUGUUUGGCU AGCGUUGUCACGUCUUGGAC UGAAGGGAGCUCCCU | -83.10 | NA | structure |
