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Tomato miRNA M00001
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| GACAGAAGAGAGUGAGCAC | 19 | miR156 | S15829016 | click here |
Digital expression
| Sample | No. raw reads | RPM | |||
|---|---|---|---|---|---|
| ID | Organism | Cultivar | Tissue | ||
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 1 | 0.07 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 16 | 12.33 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 31 | 23.52 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 31 | 22.09 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 15 | 11.05 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 19 | 11.86 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 19 | 12.1 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 24 | 15.82 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 24 | 14.67 |
| S0726 | Solanum lycopersicum | IL1-1 | seedlings, two-week-old | 20 | 11.97 |
| S0725 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate3 | 52 | 50.74 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 23 | 13.43 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 9 | 8.83 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 9 | 6.37 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 90 | 97.97 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 58 | 55.42 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 242 | 699.07 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 17 | 11.84 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 28 | 37.36 |
| S0716 | Solanum lycopersicum | MicroTom | fruit , 7 days post breaker | 2 | 0.84 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 14 | 3.52 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 5 | 1.28 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 2 | 0.61 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 1 | 0.3 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| aly-miR156a-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| aly-miR156b-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| aly-miR156c-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| aly-miR156d-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| aly-miR156e-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| aly-miR156f-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| aly-miR156g-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| CGACAGAAGAGAGTGAGCAC |
| ath-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ath-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ath-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ath-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ath-miR156e | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ath-miR156f | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ath-miR156g | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| CGACAGAAGAGAGTGAGCAC |
| bdi-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| bdi-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| bdi-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| bna-miR156a | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| bna-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| bna-miR156e | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| bna-miR156f | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| cca-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| cme-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| cme-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| cme-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| cme-miR156i | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| cme-miR156j | ---GACAGAAGAGAGTGAGCAC xxx||||||||||||||||||| GTTGACAGAAGAGAGTGAGCAC |
| csi-miR156 | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ctr-miR156 | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| dpr-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ghr-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ghr-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ghr-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156h | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156k | --GACAGAAGAGAGTGAGCAC xx||||||||||||||||||| TTGACAGAAGAGAGTGAGCAC |
| gma-miR156n | --GACAGAAGAGAGTGAGCAC xx||||||||||||||||||| TTGACAGAAGAGAGTGAGCAC |
| gma-miR156o | --GACAGAAGAGAGTGAGCAC xx||||||||||||||||||| TTGACAGAAGAGAGTGAGCAC |
| gma-miR156q | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACT |
| gma-miR156s | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACT |
| gma-miR156u | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156v | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156w | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156x | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| gma-miR156y | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| han-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| han-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| har-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| htu-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| hvu-miR156 | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| mdm-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156e | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156f | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156g | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156h | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156i | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156j | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156k | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156l | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156m | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156n | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mdm-miR156o | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| mtr-miR156i | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| nta-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| nta-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| nta-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| nta-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| nta-miR156e | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156b-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156c-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156e | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156f-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156g-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156h-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156i | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| osa-miR156j-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ppt-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ppt-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ppt-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156e | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ptc-miR156f | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| rco-miR156a | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| rco-miR156b | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| rco-miR156c | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| rco-miR156d | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| sbi-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156f | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156g | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156h | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| sbi-miR156i | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| smo-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| CGACAGAAGAGAGTGAGCAC |
| sof-miR156 | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| ssl-miR156 | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| ssp-miR156 | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| tae-miR156 | -GACAGAAGAGAGTGAGCAC- x|||||||||||||||||||x TGACAGAAGAGAGTGAGCACA |
| tcc-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| tcc-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| tcc-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| tcc-miR156g | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| vun-miR156a | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| vvi-miR156b | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| vvi-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| vvi-miR156d | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156a-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156b-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156c | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156d-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156e-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156f-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156g-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156h-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156i-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
| zma-miR156l-5p | -GACAGAAGAGAGTGAGCAC x||||||||||||||||||| TGACAGAAGAGAGTGAGCAC |
Precursor of miRNA M00001
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch07 | 324088 | 324171 | + | GACAGAAGAGAGUGAGCACA CGAUGUCAAAUUGUAUAAAU AUAUAUACAAUUGUCAUUUG CGUGUGCUCACUUCUCAUUC UGUC | -43.10 | NA | structure |
| SL2.40ch08 | 49276201 | 49276285 | + | GACAGAAGAGAGUGAGCACA CAUGGUGUUUUCUAGCAUGA UGUUUUACAUGCUUGAAACU AUGUGUGCUCACUGCUCUAU CUGUC | -49.20 | NA | structure |
| SL2.40ch07 | 48503783 | 48503865 | + | GACAGAAGAGAGUGAGCACA CAUGGUUCUUUCAUGGAUUA UUCCCCAUGUUUAAAAGCUC UGCGUGCUCACGCUCUAUCU GUC | -39.20 | NA | structure |
| SL2.40ch08 | 49143814 | 49143604 | - | GUGCUCACUUCUCUAUCUGU CACCCCCCAAUCCCCAACUG CUUUCUCUUUGUCUGUUUAU AUUUUUUUUUGUUUAUUUAU GAUGUUUGAUCAUAUUAAUU GGAUUAAUUCAUAAGCUUAU GCUAAGACUUUGACUUCACU UGUCUUUAUUUUUGGGUCAA GCAUUGAGUGGGAUGUAAAA CCAAAGGGAGGUGACAGAAG AGAGUGAGCAC | -67.20 | NA | structure |
| SL2.40ch08 | 49143138 | 49143055 | - | GACAGAAGAGAGUGAGCACA CAUGAUGUUUUCUCGCAUGA UGUUUACAUGCUUGAAACUA UGCGUGCUCACUGCUCUAUC UGUC | -39.60 | NA | structure |
| SL2.40ch08 | 49122967 | 49122876 | - | GACAGAAGAGAGUGAGCACA CAUGGCGUUUUCUGGCAUGA UGUUUAUAUAUAUAUAUGCU UGAAACUAUGUGUGCUCACU GCUCUAUCUGUC | -48.20 | NA | structure |
| SL2.40ch08 | 49143877 | 49143794 | - | GACAGAAGAGAGUGAGCACA UAUGGUCUUUUCAAGCAUGA UGUUUACAUGCUUGAAGCUA UGCGUGCUCACUUCUCUAUC UGUC | -46.80 | NA | structure |
