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-miR1919b

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

ACGAGAGUCAUCUGUGACAGG

miRBase

Precursor miRNA Sequence(5'-3')

GCCUUUGAUGUUCACAUCUUCCGGUAGUCCUGUCGCAGAUGACUUUCGCCCAUUUAUGGAACCACACUUUCUUUAAUUUGAAUUCUAUGUGGUAGGACGAGAGUCAUCUGUGACAGGAUAAUGGAAGAUCGAGUUAUCAAAGGC

miRBase

Precursor miRNA Structure(5'-3') 

          UUCAC        GUA                      -  CAUUUAUGGA      ---CU   UUU 
GCCUUUGAUG     AUCUUCCG   GUCCUGUCGCAGAUGACUUUCG CC          ACCACA     UUC   A
||||||||||     ||||||||   |||||||||||||||||||||| ||          ||||||     |||    
CGGAAACUAU     UAGAAGGU   UAGGACAGUGUCUACUGAGAGC GG          UGGUGU     AAG   U
          UGAGC        -AA                      A  ---------A      AUCUU   UUU

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

sly-miR1919a         ACGAGAGUCAUCUGUGACAGG
sly-miR1919b         ACGAGAGUCAUCUGUGACAGG
stu-miR1919-3p       ACGAGAGUCAUCUGUGACAGG
sly-miR1919c-3p      ACGAGAGUCAUCUGUGACAGG
                     *********************