TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

smo-miR396

Organism

Selaginella moellendorffii

Species

Mature miRNA Sequence(5'-3')

UUCCACGGCUUUCUUGAACC

miRBase

Precursor miRNA Sequence(5'-3')

UCUCAUGCUUUUCCACGGCUUUCUUGAACCUGGUGCUCUUCCAAGGCAGGAGGAUCAGAAAACGUUGUGGUAUUUCUCAUCUCCUCGUCUCGUCCUUGGUCUCCCCUUGAAAGAAACUCACCAGUAAGAGUACGAAGUUCAAGAAAGCUGUGGGAAACAAUGGCCGGA

miRBase

Precursor miRNA Structure(5'-3') 

---UC    GC                     C G        --------------------------      - --- G     --UC     -  GU 
     UCAU  UUUUCCACGGCUUUCUUGAAC U GUGCUCUU                          CCAAGG C   A GAGGA    AGAAA AC  U
     ||||  ||||||||||||||||||||| | ||||||||                          |||||| |   | |||||    ||||| ||   
     GGUA  AAAGGGUGUCGAAAGAACUUG A CAUGAGAA                          GGUUCC G   U CUCCU    UCUUU UG  G
AGGCC    AC                     A G        UGACCACUCAAAGAAAGUUCCCCUCU      U CUC G     CUAC     A  GU

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

osa-miR396e-3p      AUGGUUCAAGAAAGCCCAUGGAAA
bdi-miR396b-3p      ---GUUCAAGAAAGCCCAUGGAAA
bdi-miR396a-3p      ---GUUCAAGAAAGUCCUUGGAAA
osa-miR396f-3p      AUAGUUCAAGAAAGUCCUUGGAAA
smo-miR396          ----UUCCACGGCUUUCUUGAACC
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