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-miR160c-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GCGUGCACGGAGCCAAGCAUA

miRBase

Precursor miRNA Sequence(5'-3')

GGAAUGUGCCUGGCUCCCUGUAUGCCACUCAUCUAGAGCAACAAACUUCUGCGAGAGGUUGCCUAUGAUGGAUGGCGUGCACGGAGCCAAGCAUAUUCC

miRBase

Precursor miRNA Structure(5'-3') 

         C       C         C     -   A     AAA   C 
GGAAUGUGC UGGCUCC UGUAUGCCA UCAUC UAG GCAAC   CUU U
||||||||| ||||||| ||||||||| ||||| ||| |||||   |||  
CCUUAUACG ACCGAGG ACGUGCGGU GGUAG AUC CGUUG   GAG G
         A       C         A     U   -     -GA   C

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

osa-miR160c-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160d-3p      GCGUGCACGGAGCCAAGCAUA
bdi-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
bdi-miR160c-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160g-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160b-3p      GCGUGCAAGGAGCCAAGCAUG
zma-miR160c-3p      GCGUGCAUGGUGCCAAGCAUA
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