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

cst-miR11333

Organism

Cucumis sativus

Species

Mature miRNA Sequence(5'-3')

ACUUCGCGGUAAGUCUAACCCUAAUU

miRBase

Precursor miRNA Sequence(5'-3')

GACUUCGCGGUAAGUCUAACCCUAAUUUCGUAUGAUAAUCUUUUGCGACGUGUCUCUGCAAGACAUCGGGGAAAGUGAAAUGAUUAUAAACCUUUCUGCGACGUCGUGUCCUUGUACAAAAUUAGGGUUAGACUUAUCGCGACGUC

miRBase

Precursor miRNA Structure(5'-3') 

   U                        C      UA  CUUUU       GUCUCUGCAAGACAUCGGGGAAA 
GAC UCGCGGUAAGUCUAACCCUAAUUU GUAUGA  AU     GCGACGU                       G
||| |||||||||||||||||||||||| ||||||  ||     |||||||                       U
CUG AGCGCUAUUCAGAUUGGGAUUAAA CAUGUU  UG     UGCUGCA                       A
   C                        A      CC  -----       GCGUCUUUCCAAAUAUUAGUAAA

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

cst-miR11333      ACUUCGCGGUAAGUCUAACCCUAAUU-
ath-miR5629       ---UUAGGGUAG--UUAACGGAAGUUA
                     *   ****    ****   * **