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Tomato miRNA M00043
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UGAUUGAGCCGUGCCAAUAUC | 21 | miR171 | S23414180 | 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) | 3 | 0.4 |
| S0737 | Solanum lycopersicum | Ailsa Craig | fruit, mature green (39 days after anthesis) | 151 | 17.64 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 3 | 0.65 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 90 | 6.64 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 74 | 57.03 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 45 | 34.14 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 29 | 20.66 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 25 | 18.41 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 44 | 27.47 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 87 | 55.42 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 62 | 40.86 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 70 | 42.79 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 85 | 50.88 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 340 | 331.74 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 972 | 567.43 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 768 | 753.36 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 914 | 646.41 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 405 | 440.88 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 648 | 619.14 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 41 | 118.44 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 193 | 134.45 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 39 | 52.04 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 1 | 0.42 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 2 | 0.5 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 1 | 0.26 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 3 | 1.45 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 75 | 23.14 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 99 | 25.99 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 1 | 0.3 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 142 | 42.98 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 29 | 8.74 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aqc-miR171a | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| aqc-miR171b | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| aqc-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| bdi-miR171b | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| bdi-miR171c | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| bdi-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| cme-miR171c | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| cme-miR171f | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| crt-miR171 | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| far-miR171 | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| gma-miR171e | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| gma-miR171f | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| gma-miR171g | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| gma-miR171j-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| gma-miR171u | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| hpa-miR171a | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| htu-miR171b | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| htu-miR171c | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| hvu-miR171-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| mdm-miR171g | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| mdm-miR171h | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| mtr-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| mtr-miR171g | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| nta-miR171c | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| osa-miR171b | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| osa-miR171c-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| osa-miR171d-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| osa-miR171e-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| osa-miR171f-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| pde-miR171 | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| ptc-miR171e | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| ptc-miR171f | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| ptc-miR171g-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| ptc-miR171h-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| ptc-miR171i | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| rco-miR171c | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| rco-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| rco-miR171e | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| rco-miR171f | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| sbi-miR171a | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| sbi-miR171b | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| sbi-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| sbi-miR171i | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| sbi-miR171k | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| sly-miR171a | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| tae-miR171a | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| tcc-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| tcc-miR171e | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| tcc-miR171f | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| tcc-miR171g | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| tcc-miR171h | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| vvi-miR171a | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| vvi-miR171c | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| vvi-miR171d | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| vvi-miR171i | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| zma-miR171d-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| zma-miR171e-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| zma-miR171i-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
| zma-miR171j-3p | TGATTGAGCCGTGCCAATATC ||||||||||||||||||||| TGATTGAGCCGTGCCAATATC |
Precursor of miRNA M00043
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch06 | 40810774 | 40810851 | + | GAUGUUGGAAUGGCUCAAUC UAAUGAAAGUUUCCAAACAU UUUUGGUCAUUUUAAUUUGA UUGAGCCGUGCCAAUAUC |
-35.30 | NA | structure |
| SL2.40ch03 | 6667750 | 6667825 | + | GAUGUUGGAAUGGCUCAAUC AAAUCAAAUUUCUCAAAGUA UUGGGUCAUUUCAUUUGAUU GAGCCGUGCCAAUAUC |
-38.00 | NA | structure |
| SL2.40ch06 | 39151954 | 39152033 | + | GAUGUUGGUGUGGUUCAAUU AGAUAACAAUCUCCACGUAA AAUUAUAGAGUUUGUUAUUU GAUUGAGCCGUGCCAAUAUC |
-40.34 | NA | structure |
| SL2.40ch07 | 58137088 | 58137166 | + | GAUGUUGGUGCGGUUCAAUG AGAAAGAAGUUGUUGAAUAA GUUUUUGACCCUACUUUUUG AUUGAGCCGUGCCAAUAUC |
-39.10 | NA | structure |
| SL2.40ch02 | 41330738 | 41330647 | - | GAUAUUGGCCUGGUUCACUC AGACAACAAAAUGUAAACUA UAUUUGAAUGGUUGAGUUUU CGUUUUUCGUUUGAUUGAGC CGUGCCAAUAUC |
-36.00 | NA | structure |
