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

gra-miR8675b

Organism

Gossypium raimondii

Species

Mature miRNA Sequence(5'-3')

AGGUGAUGAUGUGGUACAAUCUCA

miRBase

Precursor miRNA Sequence(5'-3')

UUUGGUAUUAUGAUAUUGUGCCACAUCAUCACUUAAAAGUUUAAAAUUUUAUAUAAAUUUUCAGGUGAUGAUGUGGUACAAUCUCAAAGUGUCACA

miRBase

Precursor miRNA Structure(5'-3') 

UU       A   U                    A        AAAU 
  UGGUAUU UGA AUUGUGCCACAUCAUCACUU AAAGUUUA    U
  ||||||| ||| |||||||||||||||||||| ||||||||     
  ACUGUGA ACU UAACAUGGUGUAGUAGUGGA UUUUAAAU    A
AC       A   C                    C        AUAU

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

gra-miR8675b      AGGUGAUGAUGUGGUACAAUCUCA
gra-miR8675c      AGGUGAUGAUGUGGUACAAUCUUA
hvu-miR6189       AGGUGAUGCUGUGGUG--AUCU--
                  ******** ******   ****