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

bra-miR858a

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UUCGUUGUCUGUUCGACCUUG

PmiREN

Precursor miRNA Sequence(5'-3')

ATGATGATCAAAAGTGGTTGGGTTCGATGCTAGGCTTGTCAAAGTGAGCAATCTTATTTGTTCTCATCTTTGTTTCGTTGTCTGTTCGACCTTGGCCTCGATCTGTCCTCGAAA

PmiREN

Precursor miRNA Structure(5'-3') 

-----AU   -    AAAA U       U    U  U    -U  --U     -    --   UC 
       GAU GAUC    G GGUUGGG UCGA GC AGGC  UG   CAAAG UGAG  CAA  U
       ||| ||||    | ||||||| |||| || ||||  ||   ||||| ||||  |||   
       CUG CUAG    C CCGGUUC AGCU UG UCUG  GC   GUUUC ACUC  GUU  U
AAAGCUC   U    ---- U       C    -  -    UU  UUU     U    UU   UA

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

bra-miR858b        UUUCGUUGUCUGUUCGACCUU-
ath-miR858a        UUUCGUUGUCUGUUCGACCUU-
aly-miR858-5p      UUUCGUUGUCUGUUCGACCUU-
ppe-miR858         -CUCGUUGUCUGUUCGACCUUG
csi-miR858-3p      -CUCGUUGUCUGUUCGACCUUG
ath-miR858b        -UUCGUUGUCUGUUCGACCUUG
zos-miR858         -UUCGUUGUCUGUUCGACCUUG
bra-miR858a        -UUCGUUGUCUGUUCGACCUUG
mdm-miR858         -UUCGUUGUCUGUUCGACCUGA
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