Tomato miRNA M00056

sequenceLengthmiRNA familysRNA IDtarget
GUUCAAUAAAGCUGUGGGAA20miR396 S19864876 click here

Digital expression

SampleNo. raw readsRPM
IDOrganismCultivarTissue
S0739Solanum lycopersicumAilsa Craigfruit, red ripe (52 days after anthesis)555.36
S0738Solanum lycopersicumAilsa Craigfruit, breaker (42 days after anthesis)283.71
S0737Solanum lycopersicumAilsa Craigfruit, mature green (39 days after anthesis)25229.44
S0736Solanum lycopersicumAilsa Craigfruit, immature (17 days after anthesis)11123.9
S0735Solanum lycopersicumSunnyleaf , TSWV-infected292.14
S0734Solanum lycopersicumIL8-3-1seedlings, two-week-old 32.31
S0733Solanum lycopersicumIL8-3seedlings, two-week-old 21.52
S0732Solanum lycopersicumIL8-2-1seedlings, two-week-old 32.14
S0731Solanum lycopersicumIL8-2seedlings, two-week-old 32.21
S0730Solanum lycopersicumIL8-1-3seedlings, two-week-old 138.12
S0729Solanum lycopersicumIL8-1Dseedlings, two-week-old 31.91
S0728Solanum lycopersicumIL8-1-1seedlings, two-week-old 53.3
S0727Solanum lycopersicumIL2-5seedlings, two-week-old 31.83
S0726Solanum lycopersicumIL1-1seedlings, two-week-old 31.8
S0725Solanum lycopersicum x S. pennelliiM82 x LA716 (F2)seedlings, two-week-old , replicate387.81
S0724Solanum lycopersicum x S. pennelliiM82 x LA716 (F2)seedlings, two-week-old , replicate231.75
S0723Solanum lycopersicum x S. pennelliiM82 x LA716 (F2)seedlings, two-week-old , replicate121.96
S0722Solanum lycopersicum x S. pennelliiM82 x LA716 (F1)seedlings, two-week-old , replicate264.24
S0721Solanum lycopersicum x S. pennelliiM82 x LA716 (F1)seedlings, two-week-old , replicate11718.51
S0720Solanum pennelliiLA716seedlings, two-week-old , replicate2109.55
S0719Solanum pennelliiLA716seedlings, two-week-old , replicate125.78
S0718Solanum lycopersicumM82seedlings, two-week-old , replicate296.27
S0717Solanum lycopersicumM82seedlings, two-week-old , replicate134
S0716Solanum lycopersicumMicroTom fruit , 7 days post breaker10.42
S0715Solanum lycopersicumMicroTom fruit , 5 days post breaker33.07
S0714Solanum lycopersicumMicroTom fruit , 3 days post breaker102.52
S0712Solanum lycopersicumMicroTom fruit , mature green51.28
S0711Solanum lycopersicumMicroTom fruit , 11mm to 14mm in diameter248119.46
S0710Solanum lycopersicumMicroTom fruit , 5mm to 7mm in diameter9478.09
S0709Solanum lycopersicumMicroTom fruit , 1mm to 3mm in diameter42.27
S0708Solanum lycopersicumMicroTom flower, open41.23
S0707Solanum lycopersicumMicroTom flower bud, closed bud before flower blooming92.36
S0373Solanum lycopersicumHeinz 1706fruit10.3
S0372Solanum lycopersicumHeinz 1706flower41.21
S0371Solanum lycopersicumHeinz 1706leaf10.3

Hits on known miRNAs

hit miRNAalignment
aly-miR396a-3pGTTCAATAAAGCTGTGGGAA-
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GTTCAATAAAGCTGTGGGAAG
gma-miR396i-3pGTTCAATAAAGCTGTGGGAA-
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GTTCAATAAAGCTGTGGGAAG
osa-miR396a-3pGTTCAATAAAGCTGTGGGAA
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GTTCAATAAAGCTGTGGGAA
osa-miR396b-3pGTTCAATAAAGCTGTGGGAA
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GTTCAATAAAGCTGTGGGAA
zma-miR396a-3pGTTCAATAAAGCTGTGGGAA-
||||||||||||||||||||x
GTTCAATAAAGCTGTGGGAAA
zma-miR396b-3pGTTCAATAAAGCTGTGGGAA-
||||||||||||||||||||x
GTTCAATAAAGCTGTGGGAAA

Precursor of miRNA M00056

genome hit of precursorprecursor
sequence IDstartendstrandsequence folding
energy
miRNA*structure
SL2.40ch001253751912537618+ UUUCCACAGCUUUCUUGAAC
UGCAUCUACAAUUUCAAUUC
AUUAUUGAAAAAGAAAAAAU
UGAUUCAUAUUGUUGUUGCG
GUUCAAUAAAGCUGUGGGAA
-41.30miRNA* structure
SL2.40ch1229057912905660- UUUCCACAGCUUUCUUGAAC
UGCAUACAUAUAACAAAAAA
AUCUGAUUUUUUUUUGAUUU
UUUUUUACUUUUAUAAAGAA
AAAAUUUAGAUGGAAAGAAU
UAAAUUGUUGCGGUUCAAUA
AAGCUGUGGGAA
-43.20miRNA* structure