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-miR166e-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GGAAUGUUGUCUGGUUCAAGG

miRBase

Precursor miRNA Sequence(5'-3')

UGUUUCUGGGUGGAAUGUUGUCUGGUUCAAGGCCCCUUAGGAUGUGUGAUUUUUGAUGGUUUAUGCAUUCAUCUUGAUGCGAACAUCUAUCUCGGAUCUUUGGGUUCUCGAACCAGGCUUCAUUCCCCUCAGAGAUA

miRBase

Precursor miRNA Structure(5'-3') 

          U      UU         A   C   UU     G  U   UUUU    GUUUA      CA 
UGUUUCUGGG GGAAUG  GUCUGGUUC AGG CCC  AGGAU UG GAU    GAUG     UGCAUU  U
|||||||||| ||||||  ||||||||| ||| |||  ||||| || |||    ||||     ||||||   
AUAGAGACUC CCUUAC  CGGACCAAG UCU GGG  UUCUA GC CUA    CUAC     GCGUAG  U
          C      UU         C   U   -U     G  U   ---U    ---AA      UU

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

zma-miR166d-5p      GGAAUGUU-GUCUGGUUCAAGG
bdi-miR166c-5p      GGAAUGUU-GUCUGGUUCAAGG
zma-miR166b-5p      GGAAUGUU-GUCUGGUUCAAGG
osa-miR166e-5p      GGAAUGUU-GUCUGGUUCAAGG
osa-miR166a-5p      GGAAUGUU-GUCUGGUUCAAGG
csi-miR166d-5p      ---CUGUU-GUCUGGUUCAAGG
osa-miR166l-5p      GGAUUGUU-GUCUGGUUCAAGG
zma-miR166j-5p      GGUUUGUUUGUCUGGUUCAAGG
osa-miR166k-5p      GGUUUGUU-GUCUGGCUCGAGG
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