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-miR166c-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GGAAUGUUGUCUGGUCCGAG

miRBase

Precursor miRNA Sequence(5'-3')

GGCAGUUGAGGGGAAUGUUGUCUGGUCCGAGACCUAACACCGGGCGGAAUGGCGGAUUCAGCUGCAGCUAAGCAAGCUAGGUGGGGGGUUUCGGACCAGGCUUCAUUCCCCCCAACUCAACUGUU

miRBase

Precursor miRNA Structure(5'-3') 

G        -----        UU                AA    G   -G AA    GGAUU 
 GCAGUUGA     GGGGAAUG  GUCUGGUCCGAGACCU  CACC GGC  G  UGGC     C
 ||||||||     ||||||||  ||||||||||||||||  |||| |||  |  ||||     A
 UGUCAACU     CCCCUUAC  CGGACCAGGCUUUGGG  GUGG UCG  C  AUCG     U
U        CAACC        UU                GG    A   AA GA    ACGUC

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

zma-miR166g-5p      -GGAAUGUUGUCUGGUUGGAGA-
bdi-miR166d-5p      -GGAAUGUUGUCUGGUUGGAGA-
csi-miR166c-5p      GGGAAUGUUGUCUGGUUCGAG--
osa-miR166c-5p      -GGAAUGUUGUCUGGUCCGAG--
csi-miR166g-5p      --GAAUGCUGUCUGGUUCGAGAC
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