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

aly-miR399a-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGGUAAGAUCUCUAUUGGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

CAUGUGAGAUGGAUCAAAGGUGGAAAUGUAUUACAGGGUAAGAUCUCUAUUGGCAGGAAACCAUUACUUAGAUCUUUGCAUCUCUUUAUGCAUUGCUUUUAAGUGAGUUCUCUGCCAAAGGAGAUUUGCCCGGUAAUUCUUCUGCACCAAUAUAUUGAUAUG

miRBase

Precursor miRNA Structure(5'-3') 

     GA    GAUCAAA    G AAU U     A     A       A        A   CA         -U UU     CU 
CAUGU  GAUG       GGUG A   G AUUAC GGGUA GAUCUCU UUGGCAGG AAC  UUACUUAGA  C  UGCAU  C
|||||  ||||       |||| |   | ||||| ||||| ||||||| |||||||| |||  |||||||||  |  |||||   
GUAUA  UUAU       CCAC U   C UAAUG CCCGU UUAGAGG AACCGUCU UUG  AGUGAAUUU  G  ACGUA  U
     -G    ---AUAA    G CUU U     G     -       A        C   --         UC UU     UU

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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