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-miR166k-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GGUUUGUUGUCUGGCUCGAGG

miRBase

Precursor miRNA Sequence(5'-3')

AUUAGGUUAAGGGGUUUGUUGUCUGGCUCGAGGCAUCCGGGACUCCGGUUUCUCCUUUCCUACUGGAGGCGCCUAAUUUCCGGCGAGCUCGGAGCCUCGGACCAGGCUUCAAUCCCUUUAACCAUGC

miRBase

Precursor miRNA Structure(5'-3') 

AUUA          U   UU      C       A      ACUCCGGUUUCUCCUUUCCUAC 
    GGUUAAGGGG UUG  GUCUGG UCGAGGC UCCGGG                      U
    |||||||||| |||  |||||| ||||||| ||||||                       
    CCAAUUUCCC AAC  CGGACC GGCUCCG AGGCUC                      A
CGUA          U   UU      A       -      GAGCGGCCUUUAAUCCGCGGAG

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
                        **** ****** ** ***