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

zma-miR1432-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

CUCAGGAGAGAUGACACCGAC

miRBase

Precursor miRNA Sequence(5'-3')

GCUCAGGAGAGAUGACACCGACGCCAGACGGACCGGUCCAUCCGCGCCGUGUCUGUCCGUCUGAAGUGGGUGUCAUCUCGCCUGAAGCA

miRBase

Precursor miRNA Structure(5'-3') 

-   -    A           G  GC         -----    C A 
 GCU CAGG GAGAUGACACC AC  CAGACGGAC     CGGU C U
 ||| |||| ||||||||||| ||  |||||||||     |||| |  
 CGA GUCC CUCUACUGUGG UG  GUCUGCCUG     GCCG G G
A   A    G           G  AA         UCUGU    C C

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

pvi-miR1432b        -UCAGGAGAGAUGACACCGAC-
bdi-miR1432         UUCAGGAGAGAUGACACCGACA
osa-miR1432-5p      AUCAGGAGAGAUGACACCGAC-
sit-miR1432         -UCAGGAGAGAUGACACCGAC-
zma-miR1432-5p      CUCAGGAGAGAUGACACCGAC-
sbi-miR1432         CUCAGGAGAGAUGACACCGAC-
pvi-miR1432a        CUCAGGAGAGAUGACACCGAUG
                     *******************