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

vvi-miR395n

Organism

Vitis vinifera

Species

Mature miRNA Sequence(5'-3')

CUGAAGAGUCUGGAGGAACUC

miRBase

Precursor miRNA Sequence(5'-3')

GGCCUUGAGAGUUCCCCCAACCCCUCCAGUAUGACCAUCUCUCUUCUUCUUUUAAUUUGUUCAUCAAAUCUUCUUCUACUAUCUAUUUCCAGGGUGAUUUCCUCUACUGAAGAGUCUGGAGGAACUCUUGGUGCCAC

miRBase

Precursor miRNA Structure(5'-3') 

--   C           C   AC C  C     U  --CC   U    UCUUCUUUUAAUUUGUUCAUCA 
  GGC UUGAGAGUUCC CCA  C CU CAGUA GA    AUC CUCU                      A
  ||| ||||||||||| |||  | || ||||| ||    ||| ||||                       
  CCG GGUUCUCAAGG GGU  G GA GUCAU CU    UAG GGGA                      C
CA   U           A   CU A  A     -  CCUU   U    CCUUUAUCUAUCAUCUUCUUCU

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

vvi-miR395n      CUGAAGAGUCUGGAGGAACUC
mes-miR395e      CUGAAGGGUUUGGAGGAACUC
                 ****** ** ***********