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-miR171c-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GGAUAUUGGUGCGGUUCAAUC

miRBase

Precursor miRNA Sequence(5'-3')

GUGGGAACGGGAUAUUGGUGCGGUUCAAUCAGAAAGCUUGUGCUCCGAAGGCGAGGGGCUCCACUCUUUGAUUGAGCCGUGCCAAUAUCACGUCGCCUU

miRBase

Precursor miRNA Structure(5'-3') 

GU  GA   G                       A  CUUGU     GAA 
  GG  ACG GAUAUUGGUGCGGUUCAAUCAGA AG     GCUCC   G
  ||  ||| ||||||||||||||||||||||| ||     |||||    
  CC  UGC CUAUAACCGUGCCGAGUUAGUUU UC     CGGGG   G
UU  GC   A                       C  -ACCU     AGC

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

ath-miR171b-5p      AGAUAUUAGUGCGGUUCAAUC
aly-miR171b-5p      AGAUAUUAGUGCGGUUCAAUC
ath-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
gma-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
stu-miR171d-5p      AGAUAUUGGUGCGGUUCAAUU
fve-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
aly-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
gma-miR171o-5p      AGAUAUUGGUACGGUUCAAUC
lus-miR171d         AGAUAUUGGUGCGGUUCAAUC
osa-miR171c-5p      GGAUAUUGGUGCGGUUCAAUC
bdi-miR171c-5p      CGGUAUUGGUGCGGUUCAAUC
                     * **** ** *********