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

sly-miR399b

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

GGGCUACUCUCUAUUGGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

UGAUAGGGCUACUCUCUAUUGGCAUGCAAUUGUAUAUUUCAGCUGACACGCCAAAGGAGAGCUGCCCUGUUACU

miRBase

Precursor miRNA Structure(5'-3') 

--         UA      A     A  -  A   UA 
  UGAUAGGGC  CUCUCU UUGGC UG CA UUG  U
  |||||||||  |||||| ||||| || || |||  A
  AUUGUCCCG  GAGAGG AACCG AC GU GAC  U
UC         UC      A     C  A  C   UU

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

sly-miR399b         GGGCUACUCUCUAUUGGCAUG
stu-miR399j-5p      GGGCUACUCUCUAUUGGCAUA
stu-miR399o-5p      GGGCUACUCUCUAUUGGCAUG
stu-miR399n-5p      GGGCUACUCUCUAUUGGCAUG
stu-miR399i-5p      GGGCUACACUCUAUUGGCAUG
stu-miR399k-5p      GGGCUACUCUCUAUUGGCAUG
stu-miR399l-5p      GGGCUACUCUCUAUUGGCAUG
stu-miR399m-5p      GGGCUACUCUCUAUUGGCAUG
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