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

fve-miR5225

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

CUGUCGUAGGAGAGAUGGCGCC

miRBase

Precursor miRNA Sequence(5'-3')

GAUCGACGCGUAGGGACUUCUGUCGUAGGAGAGAUGGCGCCAAAUGUAUGAUGAUUACUGAUUGUAUAUGAUGUUUAUAGCUACUGUAUAUUCAUGCGGUGGGCGUCAUCUCUCUUCGACUGAAGCCCCUCGGAUCGAUU

miRBase

Precursor miRNA Structure(5'-3') 

      CG  U    A    U    U               AAA       UGAU   UGAUUG    UG 
GAUCGA  CG AGGG CUUC GUCG AGGAGAGAUGGCGCC   UGUAUGA    UAC      UAUA  A
||||||  || |||| |||| |||| |||||||||||||||   |||||||    |||      ||||  U
UUAGCU  GC UCCC GAAG CAGC UUCUCUCUACUGCGG   GCGUACU    AUG      AUAU  U
      AG  -    C    U    -               GUG       -UAU   UCAUCG    UU

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

ppe-miR5225-5p      UCUGUCGUAGGAGAGAUGGCGC-
fve-miR5225         -CUGUCGUAGGAGAGAUGGCGCC
gma-miR5225         CCUGUCGUAGGAGAGAUGACGC-
                     ***************** ***