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-miR169r-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UGGCAAGUCUCCUCGGCUACC

miRBase

Precursor miRNA Sequence(5'-3')

AGGCCAUCUUCGAUAGCCAAGGAUGAUUUGCCUGUAGCCCCAUUGUCAUCAGCUCUCUCCGUCGAGAGCGACAACCGGGCUCUACUGGCAAGUCUCCUCGGCUACCCGAGUACCUCUUAUGCUAUCCCA

miRBase

Precursor miRNA Structure(5'-3') 

--------------   CCAU   C A     A    U        U  --     CA     AUCA      UC 
              AGG    CUU G UAGCC AGGA GAUUUGCC GU  AGCCC  UUGUC    GCUCUC  C
              |||    ||| | ||||| |||| |||||||| ||  |||||  |||||    ||||||   
              UCC    GAG C AUCGG UCCU CUGAACGG CA  UCGGG  AACAG    CGAGAG  C
ACCCUAUCGUAUUC   --AU   C C     C    -        U  UC     CC     ----      CU

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

tae-miR169          GGGCAAGUCACCCUGGGCUACC
sit-miRN3032        GGGCAAAUCAUCC-GGGCUAAC
bdi-miR169k-3p      GGGCAAGUCAGCC-UGGCUACC
osa-miR169r-3p      UGGCAAGUC-UCCUCGGCUACC
bdi-miR169h-3p      --GGCAGUCACCU-UGGCUAGC
sbi-miR169d-3p      -GGGCGGUCACCU-UGGCUAGC
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