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

ath-miR3440b-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UGGAUUGGUCAAGGGAAGCGU

miRBase

Precursor miRNA Sequence(5'-3')

UCUGGUAUUUUGCUCAAGUAUGGUUUUCUUGGCCCAUCCACUUCUAAUGUGUUUUGUAACUAAUGCAAAAUGUGCAUUAGAAGUGGAUUGGUCAAGGGAAGCGUACUUGUGCAAAAUGCGGCAGU

miRBase

Precursor miRNA Structure(5'-3') 

U   --         U        G           C               --        A 
 CUG  GUAUUUUGC CAAGUAUG UUUUCUUGGCC AUCCACUUCUAAUGU  GUUUUGUA C
 |||  ||||||||| |||||||| ||||||||||| |||||||||||||||  |||||||| U
 GAC  CGUAAAACG GUUCAUGC AAGGGAACUGG UAGGUGAAGAUUACG  UAAAACGU U
U   GG         U        G           U               UG        A

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

aly-miR3440-3p       UGGAUUGGUCAAGAGAACCGCA
ath-miR3440b-3p      UGGAUUGGUCAAGGGAAGCGU-
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