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-miR399i-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GGGCUACACUCUAUUGGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

GGGCUACACUCUAUUGGCAUGCAGCUUUUUUGGUGGCUCUAAGUAGCAAUUUGAUCAAAUAUUUGAGCUGAUAUGCCAAAGGAGAGUUGCCCUA

miRBase

Precursor miRNA Structure(5'-3') 

--    U  A    A        -      -UUUUGG   C  U    A 
  GGGC AC CUCU UUGGCAUG CAGCUU       UGG UC AAGU G
  |||| || |||| |||||||| ||||||       ||| || ||||  
  CCCG UG GAGG AACCGUAU GUCGAG       ACU AG UUUA A
AU    U  A    A        A      UUUAUAA   -  -    A

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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