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

sbi-miR1432

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

CUCAGGAGAGAUGACACCGAC

miRBase

Precursor miRNA Sequence(5'-3')

GAUAGGACAUAGGAGGCGAGAGGGACGACGAGCCGUUGGUUUGUGGGUGUGCGUCCUAUGCUCAGGAGAGAUGACACCGACGUCGGACGGACCGGUCGAUCCGCGCCGUGUCUGUCCGUCCGAAGUGGGUGUCAUCUCGCCUGAAGCAUAGGACUUACCAGCCCAGUACAUCUCCCUGUUUUCA

miRBase

Precursor miRNA Structure(5'-3') 

GAUAGGACAUAGGAGGCGAGAGGGACGACGAGCCGUUGGUUUGU    --   C          -    A           G  G          -----   U  A 
                                            GGGU  GUG GUCCUAUGCU CAGG GAGAUGACACC AC UCGGACGGAC     CGG CG U
                                            ||||  ||| |||||||||| |||| ||||||||||| || ||||||||||     ||| || C
                                            CCCG  CAU CAGGAUACGA GUCC CUCUACUGUGG UG AGCCUGCCUG     GCC GC C
------------------------ACUUUUGUCCCUCUACAUGA    AC   U          A    G           G  A          UCUGU   -  G

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
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