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

csi-miR3954

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UGGACAGAGAAAUCACGGUCA

miRBase

Precursor miRNA Sequence(5'-3')

UUUACUUGGCUGGACAGAGAAAUCACGGUCAAGUCUCUUCUUGUUCAGGAAACGAUUGAUGAUUUCUUCUUCAUCUGGUGGAUGGAA

miRBase

Precursor miRNA Structure(5'-3') 

-    C  G      --C   -       -     AA  C    CU 
 UUUA UU GCUGGA   AGA GAAAUCA CGGUC  GU UCUU  U
 |||| || ||||||   ||| ||||||| |||||  || ||||  G
 AGGU AG UGGUCU   UCU CUUUAGU GUUAG  CA AGGA  C
A    -  G      ACU   U       A     --  A    CU

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

ppe-miR7122b-5p      UUAUACAAUGAAAUCACGGUCG
ppe-miR7122a-5p      UUAUACAAUGAAAUCACGGCCG
stu-miR7122-5p       UUAUACAGAGAAACCGCUGUCG
mdm-miR7122b         UUAUACAGAGAAAUCACGGUCG
mdm-miR7122a         UUAUACAGAGAAAUCACGGUCG
csi-miR3954b-5p      UUGGACAGAGAAAUCACGGUCA
csi-miR3954          -UGGACAGAGAAAUCACGGUCA
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