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

bdi-miR5049-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UCCUUCCGACCCAUAUUACUUGU

miRBase

Precursor miRNA Sequence(5'-3')

GAAAUUCAUGUACUCCUUCCGACCCAUAUUACUUGUCGCAGAUUUAAUACAGCUACAAGUAAUAUGGAUCGGAGGAAGUAUGUCUUUUU

miRBase

Precursor miRNA Structure(5'-3') 

GAAAUUC       C       C             C  AGAUU 
       AUGUACU CUUCCGA CCAUAUUACUUGU GC     U
       ||||||| ||||||| ||||||||||||| ||      
       UGUAUGA GGAGGCU GGUAUAAUGAACA CG     U
-UUUUUC       A       A             U  ACAUA

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

bdi-miR5049-3p      ------CAAGUAAUAUGGAUCGGAGGAAGU
hvu-miR5049f        -------AAUUAAUAUGGAUCGGAGGGA--
bdi-miR5049-5p      UCCUUCCGACCCAUAUUACUUGU-------
                            *   ****   * *