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-miR5304

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UCAAUGCUACAUACUCAUCCC

miRBase

Precursor miRNA Sequence(5'-3')

UCUAAUUUAGAUCCAUGGUGCAGUUGCUCAUUCAAUGCUACAUACUCAUCCCCACAACUUUCAUCUCACGUUCAAAAGAUGAAAGUUAUAGAGAUGAGUAUGGUGCAUUGGAUGUGUGGCCAUACCAUGGGUGAUGUUAGA

miRBase

Precursor miRNA Structure(5'-3') 

      UUAG          CA     U          UA          C CAC           CACG 
UCUAAU    AUCCAUGGUG  GUUGC CAUUCAAUGC  CAUACUCAUC C   AACUUUCAUCU    U
||||||    ||||||||||  ||||| ||||||||||  |||||||||| |   |||||||||||     
AGAUUG    UGGGUACCAU  CGGUG GUAGGUUACG  GUAUGAGUAG G   UUGAAAGUAGA    A
      -UAG          AC     U          UG          A AUA           AAAC

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

sly-miR5304         UCAAUGCUACAUACUCAUCCC-
stu-miR5304-5p      -CAAUGCAACAUACUCAUCACC
                     ****** *********** *