 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
 |
Tomato miRNA M00036
| sequence | Length | miRNA family | sRNA ID | target |
|---|---|---|---|---|
| UGAAGCUGCCAGCAUGAUC | 19 | miR167 | S23003513 | 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) | 1 | 0.1 |
| S0738 | Solanum lycopersicum | Ailsa Craig | fruit, breaker (42 days after anthesis) | 1 | 0.13 |
| S0735 | Solanum lycopersicum | Sunny | leaf , TSWV-infected | 241 | 17.78 |
| S0734 | Solanum lycopersicum | IL8-3-1 | seedlings, two-week-old | 164 | 126.38 |
| S0733 | Solanum lycopersicum | IL8-3 | seedlings, two-week-old | 151 | 114.55 |
| S0732 | Solanum lycopersicum | IL8-2-1 | seedlings, two-week-old | 174 | 123.96 |
| S0731 | Solanum lycopersicum | IL8-2 | seedlings, two-week-old | 105 | 77.33 |
| S0730 | Solanum lycopersicum | IL8-1-3 | seedlings, two-week-old | 148 | 92.41 |
| S0729 | Solanum lycopersicum | IL8-1D | seedlings, two-week-old | 134 | 85.36 |
| S0728 | Solanum lycopersicum | IL8-1-1 | seedlings, two-week-old | 104 | 68.54 |
| S0727 | Solanum lycopersicum | IL2-5 | seedlings, two-week-old | 55 | 33.62 |
| 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 | 1252 | 1221.58 |
| S0724 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate2 | 992 | 579.1 |
| S0723 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F2) | seedlings, two-week-old , replicate1 | 989 | 970.15 |
| S0722 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate2 | 1232 | 871.31 |
| S0721 | Solanum lycopersicum x S. pennellii | M82 x LA716 (F1) | seedlings, two-week-old , replicate1 | 80 | 87.09 |
| S0720 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate2 | 107 | 102.23 |
| S0719 | Solanum pennellii | LA716 | seedlings, two-week-old , replicate1 | 81 | 233.99 |
| S0718 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate2 | 58 | 40.41 |
| S0717 | Solanum lycopersicum | M82 | seedlings, two-week-old , replicate1 | 38 | 50.71 |
| S0714 | Solanum lycopersicum | MicroTom | fruit , 3 days post breaker | 5 | 1.26 |
| S0712 | Solanum lycopersicum | MicroTom | fruit , mature green | 7 | 1.79 |
| S0711 | Solanum lycopersicum | MicroTom | fruit , 11mm to 14mm in diameter | 4 | 1.93 |
| S0710 | Solanum lycopersicum | MicroTom | fruit , 5mm to 7mm in diameter | 4 | 3.32 |
| S0709 | Solanum lycopersicum | MicroTom | fruit , 1mm to 3mm in diameter | 8 | 4.54 |
| S0708 | Solanum lycopersicum | MicroTom | flower, open | 31 | 9.56 |
| S0707 | Solanum lycopersicum | MicroTom | flower bud, closed bud before flower blooming | 43 | 11.29 |
| S0372 | Solanum lycopersicum | Heinz 1706 | flower | 111 | 33.59 |
| S0371 | Solanum lycopersicum | Heinz 1706 | leaf | 79 | 23.81 |
Hits on known miRNAs
| hit miRNA | alignment |
|---|---|
| ahy-miR167-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| aly-miR167a-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| aly-miR167b-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| aly-miR167d-5p | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| ath-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ath-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ath-miR167d | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| bdi-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| bdi-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| bdi-miR167c | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGA |
| bdi-miR167d | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGA |
| bna-miR167a | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTAA |
| bna-miR167b | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTAA |
| bna-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| bna-miR167d | TGAAGCTGCCAGCATGATC- |||||||||||||||||||x TGAAGCTGCCAGCATGATCT |
| bra-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| bra-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| bra-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| bra-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| cca-miR167 | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| ccl-miR167a | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGA |
| ccl-miR167b | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGA |
| cme-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| cme-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| cme-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| cme-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| cme-miR167f | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| csi-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| csi-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| csi-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| ctr-miR167 | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGA |
| dpr-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| dpr-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| dpr-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| ghr-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ghr-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| gma-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| gma-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| gma-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| gma-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| gma-miR167e | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| gma-miR167f | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| gma-miR167g | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGA |
| gma-miR167j | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| gso-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| lja-miR167 | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| mdm-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mdm-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mdm-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mdm-miR167e | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mdm-miR167f | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mdm-miR167g | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mdm-miR167h | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTTA |
| mdm-miR167i | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTTA |
| mdm-miR167j | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTTA |
| mes-miR167 | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| mtr-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| mtr-miR167b-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| nta-miR167a | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| nta-miR167b | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| nta-miR167c | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| nta-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| nta-miR167e | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| osa-miR167a-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| osa-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| osa-miR167c-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| osa-miR167d-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| osa-miR167e-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| osa-miR167f | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| osa-miR167g | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| osa-miR167h-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| osa-miR167i-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| osa-miR167j | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| ptc-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ptc-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ptc-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ptc-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| ptc-miR167e | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| ptc-miR167f-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| ptc-miR167g-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| rco-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| rco-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| rco-miR167c | TGAAGCTGCCAGCATGATC--- |||||||||||||||||||xxx TGAAGCTGCCAGCATGATCTGG |
| sbi-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| sbi-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| sbi-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sbi-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sbi-miR167e | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sbi-miR167f | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sbi-miR167g | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sbi-miR167h | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sbi-miR167i | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| sly-miR167 | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| sof-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| sof-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| ssp-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| tae-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| tcc-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| tcc-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| tcc-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTT |
| vvi-miR167a | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| vvi-miR167b | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| vvi-miR167c | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTC |
| vvi-miR167d | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| vvi-miR167e | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| zma-miR167a-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| zma-miR167b-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| zma-miR167c-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| zma-miR167d-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTA |
| zma-miR167e-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| zma-miR167f-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| zma-miR167g-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| zma-miR167h-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| zma-miR167i-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
| zma-miR167j-5p | TGAAGCTGCCAGCATGATC-- |||||||||||||||||||xx TGAAGCTGCCAGCATGATCTG |
Precursor of miRNA M00036
| genome hit of precursor | precursor | ||||||
|---|---|---|---|---|---|---|---|
| sequence ID | start | end | strand | sequence | folding energy | miRNA* | structure |
| SL2.40ch09 | 59575910 | 59575990 | + | UGAAGCUGCCAGCAUGAUCU AAACUUGGCCAUUUAUAAAG AAAAUGGGUGACUAAGGUUA GGUCAUGCUCGGACAGCCUC A |
-38.00 | NA | structure |
| SL2.40ch09 | 59584688 | 59584759 | + | UGAAGCUGCCAGCAUGAUCU AAACUUUUCUAUUGCUCCGU ACGAGGAAAGAUCAGAUCAU GUGGCAGCAUCA |
-32.60 | NA | structure |
| SL2.40ch09 | 63883415 | 63883487 | + | UGAAGCUGCCAGCAUGAUCU AAACUUACCUAUAAAUUUAU AUUAAGGCAAGAUCAGAUCA UGUGGUUGCUUCA |
-27.30 | miRNA* | structure |
| SL2.40ch06 | 45629453 | 45629375 | - | UGAAGCUGCCAGCAUGAUCU AAACUUUCCUUUUAGUUCAA AUAUAAUUCGAGGAAAGAUC AGAUCAUGUGGCAGCCUUA |
-32.70 | NA | structure |
