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

sly-miR171b-5p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

AUAUUGGUGCGGUUCAAUUAG

miRBase

Precursor miRNA Sequence(5'-3')

ACGAGAUAUUGGUGCGGUUCAAUUAGAAAGCGCACUUCUUUAUAUAUAGAACUUCGUUAUUUAAUUGAGCCGUGCCAAUAUCACGU

miRBase

Precursor miRNA Structure(5'-3') 

   A                       A    CAC    UUA 
ACG GAUAUUGGUGCGGUUCAAUUAGA AGCG   UUCU   U
||| ||||||||||||||||||||||| ||||   ||||    
UGC CUAUAACCGUGCCGAGUUAAUUU UUGC   AAGA   A
   A                       A    UUC    UAU

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

sly-miR171b-5p      AUAUUGGUGCGGUUCAAUUAG-
sly-miR171c         -UAUUGGUGCGGUUCAAUGAGA
ppe-miR171e         UUAUUGAACCGGACCAAUAUC-
                     *****   ***  ****