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

mtr-miR399s-5p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GGGUGAGUUCUCCAUUGGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

UGCAGUUGAAUUACAGGGUGAGUUCUCCAUUGGCAGGUAGCUAGUCACUAUAUGAUAUGCAUUGCAAUCAUUUCUUAGUGUGCAAUCUGCCAAAGGAGAUUUGCCCAGCGAUUCUCCUGCAAC

miRBase

Precursor miRNA Structure(5'-3') 

--     UU     A A        U    A         A  UAGU     ---U     A     
  UGCAG  GAAUU C GGGUGAGU CUCC UUGGCAGGU GC    CACUA    AUGAU UGCA 
  |||||  ||||| | |||||||| |||| ||||||||| ||    |||||    ||||| ||| U
  ACGUC  CUUAG G CCCGUUUA GAGG AACCGUCUA CG    GUGAU    UACUA ACGC 
CA     CU     C A        -    A         A  ---U     UCUU     -

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

mtr-miR399t-5p      GGGUGAGUUCUCCAUUGGCAGGU
mtr-miR399s-5p      GGGUGAGUUCUCCAUUGGCAGG-
aly-miR399a-5p      GGGUAAGAUCUCUAUUGGCAGG-
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