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

mdm-miR391

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

UACGCAGGAGAGAUGACGCCG

miRBase

Precursor miRNA Sequence(5'-3')

GGGAGGUUCGCUACGCAGGAGAGAUGACGCCGACAGUCAUGUUCUUAGUAUUAGGAUUAGAACGACGGCGUCAUCUCUCCUGCAUAGGAAACCUUGC

miRBase

Precursor miRNA Structure(5'-3') 

 G      CG   C                  ACA  CA  U     G 
G GAGGUU  CUA GCAGGAGAGAUGACGCCG   GU  UG UCUUA U
| ||||||  ||| ||||||||||||||||||   ||  || |||||  
C UUCCAA  GAU CGUCCUCUCUACUGCGGC   CA  AU AGGAU U
 G      AG   A                  -AG  AG  U     U

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

stu-miR391-5p      UACGCAGGAGAGAUGAUGCUG--
sly-miR391         -ACGCAGGAGAGAUGAUGCUGGA
gma-miR391-5p      UACGCAGGAGAGAUGACGCUGU-
mdm-miR391         UACGCAGGAGAGAUGACGCCG--
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