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Tomato miRNA M00048
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UUGGACUGAAGGGAGCUCCC | 20 | miR319 | S25581452 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 1 | 0.13 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 7 | 0.82 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 83 | 17.87 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 400 | 308.25 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 33 | 25.03 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 9 | 6.41 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 75 | 55.24 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 31 | 19.36 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 186 | 118.49 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 240 | 158.17 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 221 | 135.11 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 289 | 173 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 17 | 16.59 |
| 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 | 7 | 6.87 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 9 | 6.37 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 225 | 244.94 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 114 | 108.92 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 83 | 239.76 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 78 | 54.34 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 97 | 129.44 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 5 | 1.26 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 9 | 4.34 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 1 | 0.83 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 17 | 9.64 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 13 | 4.01 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 352 | 92.41 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 1 | 0.3 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aau-miR319 | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| aly-miR319a-3p | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| aly-miR319b-3p | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| amg-miR319 | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| aqc-miR319 | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| ath-miR319a | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| ath-miR319b | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| cca-miR319 | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| cme-miR319a | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| cme-miR319b | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| ctr-miR319 | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| gma-miR319a | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| gma-miR319b | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| gma-miR319e | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| gma-miR319h | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| gma-miR319j | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| gma-miR319k | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| gma-miR319m | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| hbr-miR319 | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319a | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319b | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| mtr-miR319a | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| mtr-miR319b | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| nta-miR319a | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| nta-miR319b | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| ppt-miR319c | -TTGGACTGAAGGGAGCTCCC x|||||||||||||||||||| CTTGGACTGAAGGGAGCTCCC |
| ppt-miR319d-3p | -TTGGACTGAAGGGAGCTCCC x|||||||||||||||||||| CTTGGACTGAAGGGAGCTCCC |
| ppt-miR319e | -TTGGACTGAAGGGAGCTCCC x|||||||||||||||||||| CTTGGACTGAAGGGAGCTCCC |
| ptc-miR319a | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| ptc-miR319b | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| ptc-miR319c | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| ptc-miR319d | TTGGACTGAAGGGAGCTCCC |||||||||||||||||||| TTGGACTGAAGGGAGCTCCC |
| rco-miR319a | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| rco-miR319b | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| rco-miR319c | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| tae-miR319 | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| vun-miR319a | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319b | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319c | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319f | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319g | TTGGACTGAAGGGAGCTCCC- ||||||||||||||||||||x TTGGACTGAAGGGAGCTCCCA |
Precursor of miRNA M00048
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch06 | 1551734 | 1551903 | + | GAGAGCUUCCUUUAGUCCAC UCAUAGGUAGACGAAGGAUU UGAAUUAUCUCCCGACUCAU UCAUUCAAACGCAAUAGGAA GUAUGUAAUCUUAUACUAUU GUGAAUGUGUGAAUGAUGCG GGAGAUAAAUUCUCUCCUUU UUAUCUGUGCUUGGACUGAA GGGAGCUCCC | -87.00 | NA | structure |
| SL2.40ch05 | 2723948 | 2723776 | - | AGGAGCUCUCUCCGGUCCAG UCCGAGGCACUCAAAGGCUA AAAACACAGCUGACGACUCG UUGAUUCUCAAACAUAUCAA GAAGCAUUUUUUGAAAUUGG UGUGUUUAAGAUUCAACGAU GCGUGAGCUAUGUUUGGCUA GCGUUGUCACGUCUUGGACU GAAGGGAGCUCCC | -83.10 | NA | structure |
