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-miR160e-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GCGUGCGAGGUGCCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

GUAGGGGAUAUGCCUGGCUCCCUGUAUGCCGCUCGCAUGGCUGCCAACCCAAUGAACUCGAUCUCGUUGUUGGCCGCUGCGUACGGCGUGCGAGGUGCCAAGCAUGGCCCUCUU

miRBase

Precursor miRNA Structure(5'-3') 

GUA    A     C    U  C         CU    UG  U      CC     ACU 
   GGGG UAUGC UGGC CC UGUAUGCCG  CGCA  GC GCCAAC  AAUGA   C
   |||| ||||| |||| || |||||||||  ||||  || ||||||  |||||    
   UCCC GUACG ACCG GG GCGUGCGGC  GCGU  CG CGGUUG  UUGCU   U
UUC    G     A    U  A         AU    --  C      --     CUA

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

osa-miR160e-3p      GCGUGCGAGGUGCCAAGCAUG
zma-miR160f-3p      GCGUGCGAGGUGCCAGGCAUG
bdi-miR160a-3p      GCGUGCGAGGAGCCAAGCAUG
zma-miR160d-3p      GCGUGCGUGGAGCCAAGCAUG
csi-miR160c-3p      GCGUGCGAGGAGCCAUGCAUG
zma-miR160a-3p      GCGUGCAAGGGGCCAAGCAUG
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