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-miR417

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

GAAGGUAGUGAAUUUGUUCGA

miRBase

Precursor miRNA Sequence(5'-3')

AAAUAUAUUCAAAAGUGGUCAAAACACGUCACUAUUUCCUUUAUGUUUUCCCCUUAUUGAUGGAAAUGGUUAAACAUGAAGGUAGUGAAUUUGUUCGAAUAAUAUGUUGAUAUAUUU

miRBase

Precursor miRNA Structure(5'-3') 

        U   AA   --GUCAA    -CG      UUU           -U  ----  UUA 
AAAUAUAU CAA  GUG       AACA   UCACUA   CCUUUAUGUUU  CC    CC   U
|||||||| |||  |||       ||||   ||||||   |||||||||||  ||    ||    
UUUAUAUA GUU  UAU       UUGU   AGUGAU   GGAAGUACAAA  GG    GG   A
        -   -G   AAUAAGC    UUA      ---           UU  UAAA  UAG

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

ath-miR417      GAAGGUAGUGAAUUUGUUCGA
osa-miR417      GAAUGUAGUGAAUUUGUUCCA
                *** *************** *