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

zma-miR171d-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UGUUGGCUCGGCUCACUCAGA

miRBase

Precursor miRNA Sequence(5'-3')

AGAAAUGGAAGUGUAACUAUGGUGUUGGCUCGGCUCACUCAGAAGUUGAAGCCGAAUCCAAAUGGUAGCUGCCGGCGUUUCUGAUUGAGCCGUGCCAAUAUCUCAGUACUCUUUCAUGCUG

miRBase

Precursor miRNA Structure(5'-3') 

AGAA       U   A  AU         U       C      --    -A   CGAAU  A 
    AUGGAAG GUA CU  GGUGUUGGC CGGCUCA UCAGAA  GUUG  AGC     CC A
    ||||||| ||| ||  ||||||||| ||||||| ||||||  ||||  |||     ||  
    UACUUUC CAU GA  CUAUAACCG GCCGAGU AGUCUU  CGGC  UCG     GG G
GUCG       U   -  CU         U       U      UG    CG   ---AU  U

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

zma-miR171e-5p      UGUUGGCUCGGCUCACUCAGA
osa-miR171d-5p      UGUUGGCCCGGCUCACUCAGA
hvu-miR171-5p       UGUUGGCUCGACUCACUCAGA
bdi-miR171d-5p      UGUUGGCUCGACUCACUCAGA
osa-miR171e-5p      UGUUGGCUCGGCUCACUCAGA
zma-miR171d-5p      UGUUGGCUCGGCUCACUCAGA
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