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-miR5654-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AUAAAUCCCAACAUCUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

AAAUAAAUCCCAACAUCUUCCACCUUACCGGCCUUGAACAUUGAUAGCUGUUAAAAUGGAAGAUGCUUUGGGAUUUAUUU

miRBase

Precursor miRNA Structure(5'-3') 

             --         CC   C    CU GAA 
AAAUAAAUCCCAA  CAUCUUCCA  UUA CGGC  U   C
|||||||||||||  |||||||||  ||| ||||  |    
UUUAUUUAGGGUU  GUAGAAGGU  AAU GUCG  A   U
             UC         AA   U    AU GUU

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

bra-miR5654a        ---AUAAAUCCCAAGCAUCAUCCA
bra-miR5654b        ---AUAAAUCCCAAGCAUCAUCCA
ath-miR5654-5p      ---AUAAAUCCCAA-CAUCUUCCA
esa-miR5654         ---AUAAAUCCCAUGCAUCUUCCA
ath-miR5654-3p      UGGAAGAUGCUUUGGGAUUUAUU-
                       *  *  *      **