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

ath-miR5658

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AUGAUGAUGAUGAUGAUGAAA

miRBase

Precursor miRNA Sequence(5'-3')

AGAUGAUGAUGAUGAUGAUGAAACAGAAUCAGUAAGAAGCUUCUUCUUCUUAGGAGGAGGAGGAAGAUUGGUUUCAUCAUCAUCACCAGUUGAA

miRBase

Precursor miRNA Structure(5'-3') 

AGAUGA  A               AG    AGUAAGAAG          U 
      UG UGAUGAUGAUGAAAC  AAUC         CUUCUUCUUC U
      || |||||||||||||||  ||||         ||||||||||  
      AC ACUACUACUACUUUG  UUAG         GGAGGAGGAG G
AAGUUG  C               -G    -------AA          G

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

ath-miR5658      -AUGAUGAUGAUGAUGAUGAAA
vca-miR5658      UUUCAUCAUCAUCAUCAUCA--
                   * ** ** ** ** ** *