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-miR1873

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UCAACAUGGUAUCAGAGCUGGAAG

miRBase

Precursor miRNA Sequence(5'-3')

UAGAUUAUGAACCUCAACAUGGUAUCAGAGCUGGAAGUCCUAAAGUUGACAUCAUGAUAGCCUGACGAUGGUGGAGACCAUGAUAAGCUGAUACCAUGUAUUUUGCCGACAUUGUGUUUCUCCAAGAUUGUGCUACAUCACAAACUUAGAAAAACUUAGAACUUCUAGCUCUGAUACCAUGUUGAGUUUUAUGGCCU

miRBase

Precursor miRNA Structure(5'-3') 

U  A       C                          C    ---------    GACAUC   A    CUG     GG      -C      --AA  -U       
 AG UUAUGAA CUCAACAUGGUAUCAGAGCUGGAAGU CUAA         AGUU      AUG UAGC   ACGAU  UGGAGA  CAUGAU    GC  GAUACC 
 || ||||||| |||||||||||||||||||||||||| ||||         ||||      ||| ||||   |||||  ||||||  ||||||    ||  ||||| A
 UC GGUAUUU GAGUUGUACCAUAGUCUCGAUCUUCA GAUU         UCAA      UAC AUCG   UGUUA  ACCUCU  GUGUUA    CG  UUAUGU 
-  C       U                          A    CAAAAAGAU    --ACAC   -    ---     GA      UU      CAGC  UU

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

osa-miR1873         UCAACAUGGUAUCAGAGCUGGAAG
aly-miR845a-3p      CGGCUCUGAUACCAG---UUGAUG
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