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Tomato miRNA M00058
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UCCACAGCUUUCUUGAACUG | 20 | miR396 | S22202599 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0739 | Solanum lycopersicum | Ailsa Craig | fruit, red ripe (52 days after anthesis) | 10 | 0.97 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 6 | 0.8 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 2549 | 297.78 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 120 | 25.84 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 4 | 0.3 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 1 | 0.76 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 1 | 0.71 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 1 | 0.64 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 1 | 0.66 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 1 | 0.6 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 1 | 0.58 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 1 | 0.98 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 2 | 5.78 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 2 | 0.51 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 1 | 0.26 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 15 | 4.49 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 1 | 0.3 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 1 | 0.3 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aau-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| aly-miR396a-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| amg-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| aqc-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ath-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| bcy-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| bdi-miR396c | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| bdi-miR396d | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| bgy-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| cme-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| csi-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| csi-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| dpr-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ghr-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ghr-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| gma-miR396a-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| gma-miR396e | -TCCACAGCTTTCTTGAACTG- x||||||||||||||||||||x TTCCACAGCTTTCTTGAACTGT |
| gma-miR396h | TCCACAGCTTTCTTGAACTG |||||||||||||||||||| TCCACAGCTTTCTTGAACTG |
| gma-miR396i-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| hbr-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| lja-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| mdm-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| mtr-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| nta-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| osa-miR396a-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| osa-miR396b-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ptc-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ptc-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| sbi-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| sbi-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| sof-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ssl-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| ssp-miR396 | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| tcc-miR396a | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| tcc-miR396b | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| vvi-miR396c | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| vvi-miR396d | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| zma-miR396a-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
| zma-miR396b-5p | -TCCACAGCTTTCTTGAACTG x|||||||||||||||||||| TTCCACAGCTTTCTTGAACTG |
Precursor of miRNA M00058
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch00 | 12537521 | 12537616 | + | UCCACAGCUUUCUUGAACUG CAUCUACAAUUUCAAUUCAU UAUUGAAAAAGAAAAAAUUG AUUCAUAUUGUUGUUGCGGU UCAAUAAAGCUGUGGG |
-39.40 | NA | structure |
| SL2.40ch12 | 2905789 | 2905662 | - | UCCACAGCUUUCUUGAACUG CAUACAUAUAACAAAAAAAU CUGAUUUUUUUUUGAUUUUU UUUUACUUUUAUAAAGAAAA AAUUUAGAUGGAAAGAAUUA AAUUGUUGCGGUUCAAUAAA GCUGUGGG |
-41.30 | NA | structure |
