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

ath-miR394b-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AGGUGGGCAUACUGCCAAUAG

miRBase

Precursor miRNA Sequence(5'-3')

CUUACAGAGAUCUUUGGCAUUCUGUCCACCUCCUCUCUCUAUAUUUAUGUGUAAUAAGUGUACGUAUCUACGGUGUGUUUCGUAAGAGGAGGUGGGCAUACUGCCAAUAGAGAUCUGUUAG

miRBase

Precursor miRNA Structure(5'-3') 

  U     GA   -      UUC              CUCUAUAUUUAUGUGUAAUAAGU 
CU ACAGA  UCU UUGGCA   UGUCCACCUCCUCU                       G
|| |||||  ||| ||||||   ||||||||||||||                        
GA UGUCU  AGA AACCGU   ACGGGUGGAGGAGA                       C
  U     AG   U      CAU              AUGCUUUGUGUGGCAUCUAUGCA

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

sly-miR394-3p       AGGUGGGCAUACUGUCAACA-
gma-miR394b-3p      AGGUGGGCAUACUGUCAACU-
ath-miR394b-3p      AGGUGGGCAUACUGCCAAUAG
aly-miR394a-3p      AGGUGGGUAUACUGCCAAUA-
zma-miR394a-3p      AGGUGGGCAUACUGCCAAUG-
zma-miR394b-3p      AGGUGGGCAUACUGCCAAUG-
aly-miR394b-3p      AGGUGGACAUAUUGCCAACA-
                    ******  *** ** ***