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-miR398a-5p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GGGUUGAUUUGAGAACAUAUG

miRBase

Precursor miRNA Sequence(5'-3')

GGGUUGAUUUGAGAACAUAUGUAUGGGCAUAUUUUGUUUCUAACAAUUUAUUGUUUAUAAAUGUGACACAUAUGUUCUCAGGUCGCCCCUG

miRBase

Precursor miRNA Structure(5'-3') 

--   U                  ---------       -  UU       
  GGG UGAUUUGAGAACAUAUGU         AUGGGCA UA  UUGUUU 
  ||| ||||||||||||||||||         ||||||| ||  ||||| C
  CCC GCUGGACUCUUGUAUACA         UAUUUGU AU  AACAAA 
GU   C                  CAGUGUAAA       U  UU

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

aly-miR398c-5p      GGGUCGACAUGAGAACAUAUG
stu-miR398a-5p      GGGUUGAUUUGAGAACAUAUG
                    **** **  ************