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

aly-miR837-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

AAACGAACAAGAAACUGAUGA

miRBase

Precursor miRNA Sequence(5'-3')

UAUAAAGUCUCCAUGUUUUUUCAUUGUUUCUUGUUUUUUUCAAGAUUAUGAUUUUUGUUUAAUUACAAUCAUAAUCUUGAAACGAACAAGAAACUGAUGAAAAACAUGAGGACUUUAUA

miRBase

Precursor miRNA Structure(5'-3') 

          C         U    -           U               UUU   UU 
UAUAAAGUCU CAUGUUUUU CAUU GUUUCUUGUUU UUUCAAGAUUAUGAU   UGU  A
|||||||||| ||||||||| |||| ||||||||||| |||||||||||||||   |||   
AUAUUUCAGG GUACAAAAA GUAG CAAAGAACAAG AAAGUUCUAAUACUA   ACA  U
          A         -    U           C               ---   UU

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

aly-miR837-3p      AAACGAACAAGAAACUGAUGA-----
ath-miR837-3p      AAACGAACAAAAAACUGAUGG-----
ath-miR837-5p      -----AUCAGUUUCUUGUUCGUUUCA
                        * **      ** *