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Tomato miRNA M00053
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| CUUGGACUGAAGGGAGCUCCCU | 22 | miR319 | S14956633 | NA |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 2 | 0.43 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 165 | 127.15 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 10 | 7.59 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 3 | 2.14 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 23 | 16.94 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 18 | 11.24 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 36 | 22.93 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 92 | 60.63 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 84 | 51.35 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 104 | 62.26 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 10 | 9.76 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 10 | 5.84 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 4 | 3.92 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 3 | 2.12 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 145 | 157.85 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 98 | 93.63 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 44 | 127.1 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 53 | 36.92 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 77 | 102.75 |
| S0713 | Solanum lycopersicum | MicroTom | fruit , breaker stage | 3 | 0.85 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 1 | 0.48 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 1 | 0.83 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 13 | 7.37 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 1 | 0.31 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 42 | 11.03 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 1 | 0.3 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aau-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| aly-miR319a-3p | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| aly-miR319b-3p | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| amg-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| aqc-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| ath-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| ath-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| cca-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| cme-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| cme-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| ctr-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| gma-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| gma-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| gma-miR319e | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| gma-miR319h | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| gma-miR319j | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| gma-miR319k | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| gma-miR319m | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| hbr-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| mtr-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| mtr-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| nta-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| nta-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| ppt-miR319a | CTTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||xx CTTGGACTGAAGGGAGCTCC-- |
| ppt-miR319b | CTTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||xx CTTGGACTGAAGGGAGCTCC-- |
| ppt-miR319c | CTTGGACTGAAGGGAGCTCCCT |||||||||||||||||||||x CTTGGACTGAAGGGAGCTCCC- |
| ppt-miR319d-3p | CTTGGACTGAAGGGAGCTCCCT |||||||||||||||||||||x CTTGGACTGAAGGGAGCTCCC- |
| ppt-miR319e | CTTGGACTGAAGGGAGCTCCCT |||||||||||||||||||||x CTTGGACTGAAGGGAGCTCCC- |
| ptc-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| ptc-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| ptc-miR319c | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| ptc-miR319d | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||x -TTGGACTGAAGGGAGCTCCC- |
| rco-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| rco-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| rco-miR319c | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| sly-miR319 | CTTGGACTGAAGGGAGCTCCCT ||||||||||||||||||||xx CTTGGACTGAAGGGAGCTCC-- |
| tae-miR319 | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| vun-miR319a | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319b | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319c | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319f | CTTGGACTGAAGGGAGCTCCCT x||||||||||||||||||||| -TTGGACTGAAGGGAGCTCCCT |
Precursor of miRNA M00053
| 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 |
