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

zma-miR394b-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

AGGUGGGCAUACUGCCAAUG

miRBase

Precursor miRNA Sequence(5'-3')

UGGCGCUUACUGAGAGUUCCUUGGCAUUCUGUCCACCUCCCUUCUUGACGAUCUUGCAGAAAGUUUGCUUUUUUUGUUUGUUUGGAGGUGGGCAUACUGCCAAUGGAGCUGCGUAGGCCUCC

miRBase

Precursor miRNA Structure(5'-3') 

-U  C      UGAG      -      UUC           CUUCUU     -UCUU       
  GG GCUUAC    AGUUCC UUGGCA   UGUCCACCUCC      GACGA     GCAGAA 
  || ||||||    |||||| ||||||   |||||||||||      |||||     ||||| A
  UC CGGAUG    UCGAGG AACCGU   ACGGGUGGAGG      UUGUU     CGUUUU 
CC  -      --CG      U      CAU           -UUUGU     UUUUU

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-
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