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

osa-miR169q

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGGAGACUGCCCAUG

miRBase

Precursor miRNA Sequence(5'-3')

CCACUCAGGCUAGCCAAGGAGACUGCCCAUGAACCAGCUUAAAGGAUCAUUAAAUUGCUAAUCCUUCAGGGAGGACACAGGCAAGUCAUCCUUGGCUAUCAGAGAUAA

miRBase

Precursor miRNA Structure(5'-3') 

-CCA   A  C          -    -   CA  AA  AG   A      ---  UU 
    CUC GG UAGCCAAGGA GACU GCC  UG  CC  CUU AAGGAU   CA  A
    ||| || |||||||||| |||| |||  ||  ||  ||| ||||||   ||   
    GAG CU AUCGGUUCCU CUGA CGG  AC  GG  GGA UUCCUA   GU  U
AAUA   A  -          A    A   AC  -A  AG   C      AUC  UA

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

lus-miR169a       UAGCCAAGGAUGACUUGCCCA--
lus-miR169d       UAGCCAAGGAUGACUUGCCCA--
ptc-miR169w       UAGCCAAGGAUGACUUGCCCA--
ptc-miR169v       UAGCCAAGGAUGACUUGCCCA--
ptc-miR169ac      UAGCCAAGGACGACUUGCCCA--
ptc-miR169ad      UAGCCAAGGACGACUUGCCCA--
ptc-miR169ae      UAGCCAAGGACGACUUGCCCA--
ptc-miR169af      UAGCCAAGGACGACUUGCCCA--
osa-miR169q       UAGCCAAGGA-GACU-GCCCAUG
zma-miR169d       UAGCCAAGGA-GACU-GCCUAUG
zma-miR169e       UAGCCAAGGA-GACU-GCCUACG
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