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-miR400

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UAUGAGAGUAUUAUAAGUCAC

miRBase

Precursor miRNA Sequence(5'-3')

UGAGGAUUGUUUAUGAGAGUAUUAUAAGUCACUACAUUUGGUAAGCAAAGUGUUGUUUCUCAAACGAAGUGACUUAUGAUAAUCUCAUGAAUGGAUUUUGCA

miRBase

Precursor miRNA Structure(5'-3') 

-UG      -G         G              A A     U      A 
   AGGAUU  UUUAUGAGA UAUUAUAAGUCACU C UUUGG AAGCAA G
   ||||||  ||||||||| |||||||||||||| | ||||| ||||||  
   UUUUAG  AAGUACUCU AUAGUAUUCAGUGA G AAACU UUUGUU U
ACG      GU         A              A C     C      G

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

bra-miR400         UAUGAGAGUAUUAUAAGUCAC
aly-miR400-5p      UAUGAGAGUAUUAUAAGUCAC
ath-miR400         UAUGAGAGUAUUAUAAGUCAC
                   *********************