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

csi-miR857

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UUUUGAAUGUUGAAUGGUGGCUAU

miRBase

Precursor miRNA Sequence(5'-3')

UGUUGAAAAUUGAUUAAAAAAAAGUUGAAAAGUCAAAUUCAAAGACAUCAUUUGAAUUCAAAUGGGAGGUGGCCGAGAACUUUGAAAAGUAAUUGGAAGUGGCCAAAACUAUUUUGAAUGUUGAAUGGUGGCUAUUGAAUGUUGAAA

miRBase

Precursor miRNA Structure(5'-3') 

UGUUGAAAAUUGAUUAAAAAAAAGUUGAAAAG    -      -  A          -       -   GAGG     GAGA     G  AA 
                                UCAA AUUCAA AG CAUCAUUUGA AUUCAAA UGG    UGGCC    ACUUU AA  G
                                |||| |||||| || |||||||||| ||||||| |||    |||||    ||||| ||   
                                AGUU UAAGUU UC GUGGUAAGUU UAAGUUU AUC    ACCGG    UGAAG UU  A
------------------------------AA    G      A  G          G       U   -AAA     ----     G  AA

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

ath-miR857         UUUUGUAUGUUGAA-GGUGUAU--
aly-miR857-3p      UUUUGUAUGUUGAA-GGUGUAU--
csi-miR857         UUUUGAAUGUUGAAUGGUGGCUAU
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