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

stu-miR167c-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GGUCAUGCUCGGACAGCCUCACU

miRBase

Precursor miRNA Sequence(5'-3')

UGAAGCUGCCAGCAUGAUCUAAACUUGGCCACACUUAUAAAGAAAAAAAAUGGGUGACUAAGGUUAGGUCAUGCUCGGACAGCCUCACU

miRBase

Precursor miRNA Structure(5'-3') 

--   A    -  -           AA     CCA       AAAG 
  UGA GCUG CC AGCAUGAUCUA  CUUGG   CACUUAU    A
  ||| |||| || |||||||||||  |||||   |||||||    A
  ACU CGAC GG UCGUACUGGAU  GAAUC   GUGGGUA    A
UC   C    A  C           UG     --A       AAAA

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

aly-miR167b-3p      GGUCAUGCUCUGACAGCCUCACU
csi-miR167e-3p      GGUCAUGCUCUGACAGCCUCACU
stu-miR167c-3p      GGUCAUGCUCGGACAGCCUCACU
osa-miR167c-3p      GGUCAUGCUGCGGCAGCCUCACU
zma-miR167d-3p      GGUCAUGCUGCUGCAGCCUCACU
zma-miR167c-3p      GAUCAUGCUGUGGCAGCCUCACU
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