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Tomato miRNA M00008
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UGACAGAAGAGAGUGAGCACA | 21 | miR156 | S23094736 | 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) | 1 | 0.12 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 51 | 3.76 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 18 | 13.87 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 14 | 10.62 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 14 | 9.97 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 14 | 10.31 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 16 | 9.99 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 10 | 6.37 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 13 | 8.57 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 24 | 14.67 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 23 | 13.77 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 79 | 77.08 |
| 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 | 19 | 18.64 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 17 | 12.02 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 33 | 35.92 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 25 | 23.89 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 58 | 167.55 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 13 | 9.06 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 55 | 73.39 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 2 | 0.84 |
| S0715 | Solanum lycopersicum | MicroTom | fruit , 5 days post breaker | 4 | 4.09 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 11 | 2.77 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 7 | 1.79 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 5 | 2.41 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 2 | 1.66 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 4 | 1.23 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 5 | 1.31 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 2 | 0.6 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 3 | 0.91 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 5 | 1.51 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| bna-miR156a | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| hvu-miR156 | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| rco-miR156a | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| rco-miR156b | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| rco-miR156c | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| rco-miR156d | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| ssl-miR156 | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| ssp-miR156 | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
| tae-miR156 | TGACAGAAGAGAGTGAGCACA ||||||||||||||||||||| TGACAGAAGAGAGTGAGCACA |
Precursor of miRNA M00008
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch08 | 49276200 | 49276286 | + | UGACAGAAGAGAGUGAGCAC ACAUGGUGUUUUCUAGCAUG AUGUUUUACAUGCUUGAAAC UAUGUGUGCUCACUGCUCUA UCUGUCA |
-50.90 | NA | structure |
| SL2.40ch07 | 48503782 | 48503866 | + | UGACAGAAGAGAGUGAGCAC ACAUGGUUCUUUCAUGGAUU AUUCCCCAUGUUUAAAAGCU CUGCGUGCUCACGCUCUAUC UGUCA |
-40.90 | NA | structure |
| SL2.40ch07 | 324087 | 324172 | + | UGACAGAAGAGAGUGAGCAC ACGAUGUCAAAUUGUAUAAA UAUAUAUACAAUUGUCAUUU GCGUGUGCUCACUUCUCAUU CUGUCA |
-44.80 | NA | structure |
| SL2.40ch08 | 49122968 | 49122875 | - | UGACAGAAGAGAGUGAGCAC ACAUGGCGUUUUCUGGCAUG AUGUUUAUAUAUAUAUAUGC UUGAAACUAUGUGUGCUCAC UGCUCUAUCUGUCA |
-49.90 | NA | structure |
| SL2.40ch08 | 49143878 | 49143793 | - | UGACAGAAGAGAGUGAGCAC AUAUGGUCUUUUCAAGCAUG AUGUUUACAUGCUUGAAGCU AUGCGUGCUCACUUCUCUAU CUGUCA |
-48.50 | NA | structure |
| SL2.40ch08 | 49143815 | 49143603 | - | CGUGCUCACUUCUCUAUCUG UCACCCCCCAAUCCCCAACU GCUUUCUCUUUGUCUGUUUA UAUUUUUUUUUGUUUAUUUA UGAUGUUUGAUCAUAUUAAU UGGAUUAAUUCAUAAGCUUA UGCUAAGACUUUGACUUCAC UUGUCUUUAUUUUUGGGUCA AGCAUUGAGUGGGAUGUAAA ACCAAAGGGAGGUGACAGAA GAGAGUGAGCACA |
-69.20 | NA | structure |
| SL2.40ch08 | 49143139 | 49143054 | - | UGACAGAAGAGAGUGAGCAC ACAUGAUGUUUUCUCGCAUG AUGUUUACAUGCUUGAAACU AUGCGUGCUCACUGCUCUAU CUGUCA |
-41.30 | NA | structure |
