Tomato miRNA M00055

sequenceLengthmiRNA familysRNA IDtarget
UUCCACAGCUUUCUUGAAC19miR396 S25045575 click here

Digital expression

SampleNo. raw readsRPM
IDOrganismCultivarTissue
S0739Solanum lycopersicumAilsa Craigfruit, red ripe (52 days after anthesis)171.66
S0738Solanum lycopersicumAilsa Craigfruit, breaker (42 days after anthesis)60.8
S0737Solanum lycopersicumAilsa Craigfruit, mature green (39 days after anthesis)303.5
S0736Solanum lycopersicumAilsa Craigfruit, immature (17 days after anthesis)51.08
S0735Solanum lycopersicumSunnyleaf , TSWV-infected39228.91
S0734Solanum lycopersicumIL8-3-1seedlings, two-week-old 501386.08
S0733Solanum lycopersicumIL8-3seedlings, two-week-old 713540.89
S0732Solanum lycopersicumIL8-2-1seedlings, two-week-old 809576.36
S0731Solanum lycopersicumIL8-2seedlings, two-week-old 339249.67
S0730Solanum lycopersicumIL8-1-3seedlings, two-week-old 961600.05
S0729Solanum lycopersicumIL8-1Dseedlings, two-week-old 632402.61
S0728Solanum lycopersicumIL8-1-1seedlings, two-week-old 549361.82
S0727Solanum lycopersicumIL2-5seedlings, two-week-old 465284.28
S0726Solanum lycopersicumIL1-1seedlings, two-week-old 467279.55
S0725Solanum lycopersicum x S. pennelliiM82 x LA716 (F2)seedlings, two-week-old , replicate318021758.21
S0724Solanum lycopersicum x S. pennelliiM82 x LA716 (F2)seedlings, two-week-old , replicate21451847.05
S0723Solanum lycopersicum x S. pennelliiM82 x LA716 (F2)seedlings, two-week-old , replicate119501912.82
S0722Solanum lycopersicum x S. pennelliiM82 x LA716 (F1)seedlings, two-week-old , replicate224131706.55
S0721Solanum lycopersicum x S. pennelliiM82 x LA716 (F1)seedlings, two-week-old , replicate1228248.2
S0720Solanum pennelliiLA716seedlings, two-week-old , replicate2302288.55
S0719Solanum pennelliiLA716seedlings, two-week-old , replicate1293846.4
S0718Solanum lycopersicumM82seedlings, two-week-old , replicate2232161.62
S0717Solanum lycopersicumM82seedlings, two-week-old , replicate1174232.19
S0716Solanum lycopersicumMicroTom fruit , 7 days post breaker93.76
S0715Solanum lycopersicumMicroTom fruit , 5 days post breaker11.02
S0714Solanum lycopersicumMicroTom fruit , 3 days post breaker10426.18
S0713Solanum lycopersicumMicroTom fruit , breaker stage298.22
S0712Solanum lycopersicumMicroTom fruit , mature green33585.71
S0711Solanum lycopersicumMicroTom fruit , 11mm to 14mm in diameter266128.13
S0710Solanum lycopersicumMicroTom fruit , 5mm to 7mm in diameter4234.89
S0709Solanum lycopersicumMicroTom fruit , 1mm to 3mm in diameter10358.4
S0708Solanum lycopersicumMicroTom flower, open298.95
S0707Solanum lycopersicumMicroTom flower bud, closed bud before flower blooming8522.31
S0373Solanum lycopersicumHeinz 1706fruit26779.92
S0372Solanum lycopersicumHeinz 1706flower14945.09
S0371Solanum lycopersicumHeinz 1706leaf19157.56

Hits on known miRNAs

hit miRNAalignment
aau-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
aly-miR396a-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
aly-miR396b-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
amg-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
aqc-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
aqc-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
ath-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ath-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
bcy-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
bcy-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
bdi-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
bdi-miR396dTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
bdi-miR396eTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
bgy-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
bgy-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
bna-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
cca-miR396a-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
ccl-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
cme-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
cme-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
cme-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
cme-miR396dTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
csi-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
csi-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
dpr-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ghr-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ghr-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
gma-miR396a-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
gma-miR396b-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
gma-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
gma-miR396eTTCCACAGCTTTCTTGAAC---
|||||||||||||||||||xxx
TTCCACAGCTTTCTTGAACTGT
gma-miR396i-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
hbr-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
lja-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
mdm-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACAG
mdm-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
mdm-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
mdm-miR396dTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
mdm-miR396eTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
mtr-miR396a-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
mtr-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
nta-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
nta-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
nta-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
osa-miR396a-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
osa-miR396b-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
osa-miR396c-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
pab-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTA
pta-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
ptc-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ptc-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ptc-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
ptc-miR396dTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
ptc-miR396e-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
rco-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
sbi-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
sbi-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
sbi-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
sof-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ssl-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
ssp-miR396TTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
tcc-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
tcc-miR396bTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
tcc-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
tcc-miR396eTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
vvi-miR396aTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTA
vvi-miR396bTTCCACAGCTTTCTTGAAC-
|||||||||||||||||||x
TTCCACAGCTTTCTTGAACT
vvi-miR396cTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
vvi-miR396dTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
zma-miR396a-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
zma-miR396b-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTG
zma-miR396e-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT
zma-miR396f-5pTTCCACAGCTTTCTTGAAC--
|||||||||||||||||||xx
TTCCACAGCTTTCTTGAACTT

Precursor of miRNA M00055

genome hit of precursorprecursor
sequence IDstartendstrandsequence folding
energy
miRNA*structure
SL2.40ch001253752012537617+ UUCCACAGCUUUCUUGAACU
GCAUCUACAAUUUCAAUUCA
UUAUUGAAAAAGAAAAAAUU
GAUUCAUAUUGUUGUUGCGG
UUCAAUAAAGCUGUGGGA
-40.30miRNA* structure
SL2.40ch1229057902905661- UUCCACAGCUUUCUUGAACU
GCAUACAUAUAACAAAAAAA
UCUGAUUUUUUUUUGAUUUU
UUUUUACUUUUAUAAAGAAA
AAAUUUAGAUGGAAAGAAUU
AAAUUGUUGCGGUUCAAUAA
AGCUGUGGGA
-42.20miRNA* structure
SL2.40ch0726288732628773- UUCCACAGCUUUCUUGAACU
UCUUCUUGCUAAAUUUUGAU
CUCUAAAUUGAUAAUUUUGA
GAUGAGAUUUGAAGCUAUGA
AAGUCCAAGAAAGCUGUGGG
A
-40.20NA structure