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

bdi-miR7729b-3p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

AGCAAUGGUGGUGGUUUGGAGGAG

miRBase

Precursor miRNA Sequence(5'-3')

CCUCGAUUUACUGUUUUCAUAGGCCAUGUAGAGCUAAUUUUGUGGUGCAAAGUUGGAGCAAUGGUGGUGGUUUGGAGGAGUUUGGAGGUG

miRBase

Precursor miRNA Structure(5'-3') 

--    G UUU   G      -UAG     -GUA AG            
  CCUC A   ACU UUUUCA    GCCAU    G  CUAAUUUUGUG 
  |||| |   ||| ||||||    |||||    |  |||||||||| G
  GGAG U   UGA GGAGGU    UGGUG    C  GGUUGAAACGC 
GU    G --U   -      UUGG     GUAA GA

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

bdi-miR7729a-3p      AGCAAUGGUGGUGGUUUGGAGGAG
bdi-miR7729b-3p      AGCAAUGGUGGUGGUUUGGAGGAG
vvi-miR3633a-5p      -GGAAUG--GAUGGUUAGGAGAG-
                      * ****  * ***** ****