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Tomato miRNA M00003
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UGACAGAAGAGAGUGAGCGC | 20 | miR156 | S23094745 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 1 | 0.13 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 5 | 0.37 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 5 | 3.85 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 2 | 1.52 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 5 | 3.56 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 3 | 2.21 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 6 | 3.75 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 2 | 1.27 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 3 | 1.98 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 3 | 1.83 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 4 | 2.39 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 2 | 1.95 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 12 | 13.06 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 3 | 2.87 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 58 | 167.55 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 2 | 1.39 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 7 | 9.34 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 3 | 1.25 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 16 | 4.03 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 1 | 0.26 |
| S0373 | Solanum lycopersicum | Heinz 1706 | fruit | 3 | 0.9 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 6 | 1.82 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 2 | 0.6 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aly-miR156a-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| aly-miR156b-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| aly-miR156c-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| aly-miR156d-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| aly-miR156e-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| aly-miR156f-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ath-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ath-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ath-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ath-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ath-miR156e | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ath-miR156f | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| bdi-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| bdi-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| bdi-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| bna-miR156a | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| bna-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| bna-miR156e | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| bna-miR156f | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| cca-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| cme-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| cme-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| cme-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| cme-miR156i | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| cme-miR156j | --TGACAGAAGAGAGTGAGCGC xx||||||||||||||||||x| GTTGACAGAAGAGAGTGAGCAC |
| csi-miR156 | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ctr-miR156 | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| dpr-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ghr-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ghr-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ghr-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156h | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156k | -TGACAGAAGAGAGTGAGCGC x||||||||||||||||||x| TTGACAGAAGAGAGTGAGCAC |
| gma-miR156n | -TGACAGAAGAGAGTGAGCGC x||||||||||||||||||x| TTGACAGAAGAGAGTGAGCAC |
| gma-miR156o | -TGACAGAAGAGAGTGAGCGC x||||||||||||||||||x| TTGACAGAAGAGAGTGAGCAC |
| gma-miR156q | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACT |
| gma-miR156s | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACT |
| gma-miR156u | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156v | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156w | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156x | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| gma-miR156y | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| han-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| han-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| har-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| htu-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| hvu-miR156 | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| mdm-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156e | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156f | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156g | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156h | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156i | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156j | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156k | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156l | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156m | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156n | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156o | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156i | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| nta-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| nta-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| nta-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| nta-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| nta-miR156e | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156b-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156c-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156e | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156f-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156g-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156h-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156i | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| osa-miR156j-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ppt-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ppt-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ppt-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156e | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156f | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| rco-miR156a | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| rco-miR156b | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| rco-miR156c | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| rco-miR156d | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| sbi-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156f | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156g | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156h | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156i | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| sof-miR156 | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| ssl-miR156 | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| ssp-miR156 | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| tae-miR156 | TGACAGAAGAGAGTGAGCGC- ||||||||||||||||||x|x TGACAGAAGAGAGTGAGCACA |
| tcc-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| tcc-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| tcc-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| tcc-miR156g | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| vun-miR156a | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| vvi-miR156b | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| vvi-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| vvi-miR156d | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156a-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156b-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156c | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156d-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156e-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156f-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156g-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156h-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156i-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
| zma-miR156l-5p | TGACAGAAGAGAGTGAGCGC ||||||||||||||||||x| TGACAGAAGAGAGTGAGCAC |
Precursor of miRNA M00003
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch08 | 49143381 | 49143296 | - | UGACAGAAGAGAGUGAGCGC ACAUGAUGUUUUCUCGCAUG AUGUUUACAUGCUUGAAACU AUGCGUGCUCACUGCUCUAU CUGUCA | -40.90 | NA | structure |
