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

hvu-miR5049f

Organism

Hordeum vulgare

Species

Mature miRNA Sequence(5'-3')

AAUUAAUAUGGAUCGGAGGGA

miRBase

Precursor miRNA Sequence(5'-3')

UGAAAAGUUUCUACUCCCCCCGAUCCAAAUUAAUUGACACUGCCUUAGUUCAACUUUUAGUACAAAGUUGUACUAACGCAGCGUCAAUUAAUAUGGAUCGGAGGGAGUACUUUUGU

miRBase

Precursor miRNA Structure(5'-3') 

UG      UUCU      C        A          A    C     U       UA 
  AAAAGU    ACUCCC CCGAUCCA AUUAAUUGAC CUGC UUAGU CAACUUU  G
  ||||||    |||||| |||||||| |||||||||| |||| ||||| |||||||   
  UUUUCA    UGAGGG GGCUAGGU UAAUUAACUG GACG AAUCA GUUGAAA  C
UG      ----      A        A          C    C     U       CA

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

bdi-miR5049-3p      ------CAAGUAAUAUGGAUCGGAGGAAGU
hvu-miR5049f        -------AAUUAAUAUGGAUCGGAGGGA--
bdi-miR5049-5p      UCCUUCCGACCCAUAUUACUUGU-------
                            *   ****   * *