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

stu-miR1919-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

ACGAGAGUCAUCUGUGACAGG

miRBase

Precursor miRNA Sequence(5'-3')

UGUCGCAGAUGACUUUCGCCCUUCUCAUUCAGCCCCUUUCUCUAAAUCUAAUUAAUUUGAUUUCAAUGUGGUAGGACGAGAGUCAUCUGUGACAGG

miRBase

Precursor miRNA Structure(5'-3') 

--                  C   -  U    CAGCCCCUUUCUCU     UAAU 
  UGUCGCAGAUGACUUUCG CCU UC CAUU              AAAUC    U
  |||||||||||||||||| ||| || ||||              |||||     
  ACAGUGUCUACUGAGAGC GGA GG GUAA              UUUAG    U
GG                  A   U  U    -------------C     UUUA

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
                     *********************