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-miR399f-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGGCAAGAUCACCAUUGGCAGA

miRBase

Precursor miRNA Sequence(5'-3')

AUGAAAGAUACAUAGAGAAGGUGCAAAUACAUUACAGGGCAAGAUCACCAUUGGCAGAAAUCUAUUACUUCAUUCUUGCAUAAUAUGCAUUAAUGUUUGUGGUGAGCUCUCUGCCAAAGGAGAUUUGCCCUGUAAUUCUCUUGCGCCAAUGUUUUAGAUAUCUUCAU

miRBase

Precursor miRNA Structure(5'-3') 

     A    CA     --AA       AUAC           A    A  A        --AA  U     -UU    CU       
AUGAA GAUA  UAGAG    GGUGCAA    AUUACAGGGCA GAUC CC UUGGCAGA    UC AUUAC   CAUU  UGCAUA 
||||| ||||  |||||    |||||||    ||||||||||| |||| || ||||||||    || |||||   ||||  ||||| A
UACUU CUAU  AUUUU    CCGCGUU    UAAUGUCCCGU UUAG GG AACCGUCU    AG UGGUG   GUAA  ACGUAU 
     -    AG     GUAA       CUCU           -    A  A        CUCG  -     UUU    UU

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

aly-miR399h-5p      GGGCAAGAUCUCUAUUGGCAGG
csi-miR399a-5p      GGGCAACAUCUCCAUUGGCAGG
aly-miR399f-5p      GGGCAAGAUCACCAUUGGCAGA
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