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

osa-miR3979-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UCUCUCUCUCCCUUGAAGGC

miRBase

Precursor miRNA Sequence(5'-3')

GGUUUUCUUGGAUCUCUCUCUCCCUUGAAGGCUAUCUCAUGGAGGUUUGAUGUACACCAUUGUUGCCUAAGAAACUGAGAAAGCCUUCGGGGGAGGAGAGAAGCCAAGCAAGCC

miRBase

Precursor miRNA Structure(5'-3') 

     U     -A      U              A     ---- GG    -U     U 
GGUUU CUUGG  UCUCUC CUCCCUUGAAGGCU UCUCA    U  AGGU  UGAUG A
||||| |||||  |||||| |||||||||||||| |||||    |  ||||  ||||| C
CCGAA GAACC  AGAGAG GAGGGGGCUUCCGA AGAGU    G  UCCG  GUUAC C
     C     GA      -              A     CAAA AA    UU     C

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

pha-miR3979         UCCCUCUCUCCCUUGAAGGCU
sit-miR3979         UCCCUCUCUCCCUUGAAGGCU
osa-miR3979-5p      UCUCUCUCUCCCUUGAAGGC-
                    ** *****************