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Tomato miRNA M00049
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UGGACUGAAGGGAGCUCCCU | 20 | miR319 | S23646567 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 1 | 0.22 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 942 | 725.92 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 56 | 42.48 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 17 | 12.11 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 249 | 183.38 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 49 | 30.6 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 230 | 146.52 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 605 | 398.73 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 607 | 371.09 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 522 | 312.48 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 69 | 67.32 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 85 | 49.62 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 6 | 5.89 |
| 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 | 1187 | 1292.17 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 1004 | 959.28 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 320 | 924.39 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 494 | 344.14 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 289 | 385.65 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 2 | 0.96 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 2 | 1.66 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 366 | 96.08 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aau-miR319 | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| aly-miR319a-3p | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| aly-miR319b-3p | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| amg-miR319 | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| aqc-miR319 | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| ath-miR319a | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| ath-miR319b | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| cca-miR319 | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319h | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319j | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319k | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| gma-miR319m | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| hbr-miR319 | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319a | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| mdm-miR319b | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| nta-miR319a | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| nta-miR319b | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| rco-miR319a | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| rco-miR319b | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| rco-miR319c | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| tae-miR319 | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vun-miR319a | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319b | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319c | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
| vvi-miR319f | -TGGACTGAAGGGAGCTCCCT x|||||||||||||||||||| TTGGACTGAAGGGAGCTCCCT |
Precursor of miRNA M00049
| 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 |
