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-miR6024

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UUUUAGCAAGAGUUGUUUUACC

miRBase

Precursor miRNA Sequence(5'-3')

AACUGGAAAUGGGGAAGUGGAGAAACAACACUUGCUAAAGGAAGUUCACCAGUCAUCUCUUUUCUUUUGGAGUUUUUUUAGCAAGAGUUGUUUUACCUCUUCUCAAUUCCGUCUCUC

miRBase

Precursor miRNA Structure(5'-3') 

---AAC     AUG      U  A        A             G    CC  UCAU 
      UGGAA   GGGAAG GG GAAACAAC CUUGCUAAAGGAA UUCA  AG    C
      |||||   |||||| || |||||||| ||||||||||||| ||||  ||    U
      GCCUU   CUCUUC CC UUUUGUUG GAACGAUUUUUUU AGGU  UC    U
CUCUCU     -AA      U  A        A             G    UU  UUUU

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

stu-miR6024-3p      UUUUAGCAAGAGUUGUUUUCCC
sly-miR6024         UUUUAGCAAGAGUUGUUUUACC
                    ******************* **