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

ath-miR169f-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

GCAAGUUGACCUUGGCUCUGC

miRBase

Precursor miRNA Sequence(5'-3')

GGGUCUUGCAUGAAGGAAUAACGAAUGGAAUUGAGCCAAGGAUGACUUGCCGGUUUAAACCCAACCGGUUUAUGACCAUUGAUUUGGUCUCAUUCACAAUCUGUUGAUUCGUGUCUGGCAAGUUGACCUUGGCUCUGCUUCGUUCUCUAUUCUUCCAUGUUAGAUUC

miRBase

Precursor miRNA Structure(5'-3') 

      U     A       AC       AUU         AU          UUUAAACCCAACCGGUUUAUGACCAUUGA 
GGGUCU GCAUG AGGAAUA  GAAUGGA   GAGCCAAGG  GACUUGCCGG                             U
|||||| ||||| |||||||  |||||||   |||||||||  ||||||||||                             U
CUUAGA UGUAC UUCUUAU  CUUGCUU   CUCGGUUCC  UUGAACGGUC                             G
      U     C       CU       CGU         AG          UGUGCUUAGUUGUCUAACACUUACUCUGG

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

aly-miR169e-3p      GCAAGUUGACCUUGGCUCUGU
aly-miR169g-3p      GCAAGUUGACCUUGGCUCUGU
aly-miR169d-3p      GCAAGUUGACCUUGGCUCUGU
ath-miR169f-3p      GCAAGUUGACCUUGGCUCUGC
aly-miR169f-3p      GCAAGUUGACCUUGGCUCUGC
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