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Tomato miRNA M00004
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| CUGACAGAAGAGAGUGAGCA | 20 | miR156 | S14644991 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 1 | 0.77 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 2 | 1.52 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 1 | 0.74 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 1 | 0.61 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 213 | 207.82 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 40 | 23.35 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 257 | 252.1 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 198 | 140.03 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 98 | 106.68 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 163 | 155.74 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 96 | 277.32 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 1 | 0.42 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 4 | 1.01 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 1 | 0.3 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| cme-miR156j | -CTGACAGAAGAGAGTGAGCA- xx|||||||||||||||||||x GTTGACAGAAGAGAGTGAGCAC |
| gma-miR156k | CTGACAGAAGAGAGTGAGCA- x|||||||||||||||||||x TTGACAGAAGAGAGTGAGCAC |
| gma-miR156n | CTGACAGAAGAGAGTGAGCA- x|||||||||||||||||||x TTGACAGAAGAGAGTGAGCAC |
| gma-miR156o | CTGACAGAAGAGAGTGAGCA- x|||||||||||||||||||x TTGACAGAAGAGAGTGAGCAC |
Precursor of miRNA M00004
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch07 | 324086 | 324173 | + | CUGACAGAAGAGAGUGAGCA CACGAUGUCAAAUUGUAUAA AUAUAUAUACAAUUGUCAUU UGCGUGUGCUCACUUCUCAU UCUGUCAG | -47.30 | NA | structure |
