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Tomato miRNA M00042
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| CAGCCAGGGAUGACUUGCCGA | 21 | miR169 | S13077977 | NA |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| 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) | 8 | 0.93 |
| S0736 | Solanum lycopersicum | Ailsa Craig | fruit, immature (17 days after anthesis) | 4 | 0.86 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 1 | 0.07 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 3 | 2.31 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 2 | 1.25 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 1 | 0.64 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 3 | 1.98 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 2 | 1.2 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 62 | 60.49 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 91 | 53.12 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 180 | 176.57 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 18 | 12.73 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 22 | 23.95 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 45 | 43 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 10 | 28.89 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 4 | 2.79 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 1 | 1.33 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 1 | 0.26 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aly-miR169a-5p | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| ath-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| bdi-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| bna-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| bna-miR169b | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| gma-miR169b | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| mtr-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| mtr-miR169b | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169b | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169c | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169d | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169e | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169f | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169g | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169h | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169i | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169j | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169k | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169l | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169m | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169o | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| nta-miR169p | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| osa-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| ptc-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| ptc-miR169b-5p | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| ptc-miR169c | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| sbi-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| sly-miR169c | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| tcc-miR169a | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| tcc-miR169c | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| tcc-miR169e | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| vvi-miR169f | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| vvi-miR169g | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| zma-miR169a-5p | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
| zma-miR169b-5p | CAGCCAGGGATGACTTGCCGA ||||||x|||||||||||||| CAGCCAAGGATGACTTGCCGA |
Precursor of miRNA M00042
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch07 | 4134748 | 4134670 | - | CAGCCAGGGAUGACUUGCCG AUGAUUUCUUUCCUAGUUUU CCUAUUAAAGAUUAUGUAUC GGCAAGUUGUCCCUGGCUA |
-45.90 | NA | structure |
