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

bdi-miR160c-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GCGUGCAAGGAGCCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

UAAAUUGAUGAUCUGAUCAAGACUGUGCUGUGCCUGGCUCCCUGUAUGCCACACAUGUAGCCCAGCCCAUGAAUGUGGUUUGCCUGCUGUGGGUGGCGUGCAAGGAGCCAAGCAUGCAUUACGCAUUAUGAUCAAUUAAUCUCUGGUU

miRBase

Precursor miRNA Structure(5'-3') 

-----UAA      -    -    CAAGACU    U    C       C          A   -    C C    -  U 
        AUUGAU GAUC UGAU       GUGC GUGC UGGCUCC UGUAUGCCAC CAU GUAG C AGCC CA G
        |||||| |||| ||||       |||| |||| ||||||| |||||||||| ||| |||| | |||| ||  
        UAAUUA CUAG AUUA       UACG UACG ACCGAGG ACGUGCGGUG GUG CGUC G UUGG GU U
UUGGUCUC      A    U    --CGCAU    -    A       A          G   U    C U    U  A

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

osa-miR160c-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160d-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
bdi-miR160c-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160g-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160c-3p      GCGUGCAUGGUGCCAAGCAUA
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