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

osa-miR5340

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UGAUGACGUGGAUGAAUUUCAAA

miRBase

Precursor miRNA Sequence(5'-3')

GAAAAUGAAAGUCUGAAGAUUUAUUCAUAUCAUCAUGAGUAAAUUAUUUUACUUGUGAUGACGUGGAUGAAUUUCAAACGUUUAUUUU

miRBase

Precursor miRNA Structure(5'-3') 

G        A  C   A           A              U 
 AAAAUGAA GU UGA GAUUUAUUCAU UCAUCAUGAGUAAA U
 |||||||| || ||| ||||||||||| ||||||||||||||  
 UUUUAUUU CA ACU UUAAGUAGGUG AGUAGUGUUCAUUU U
-        G  A   -           C              U

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

osa-miR5340         UGAUGACGUGGAUGAAUUUCAAA
mtr-miR5556-3p      UGAUGACG--GAAGAAAUCCAAA
                    ********  ** *** * ****