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-miR1432

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UUCAGGAGAGAUGACACCGACA

miRBase

Precursor miRNA Sequence(5'-3')

UCCUUUGUUCAGGAGAGAUGACACCGACAUCGAUCUGAUGGGUCGGCUCAGUUCAAUUAGUUACUAGGCCAUGUGUGUCCAUCCGCUUGGAGUGGGUGUCAUCUCCCCUGAACAUAGGACG

miRBase

Precursor miRNA Structure(5'-3') 

--    U        A           G  A    U U      U ------    C   UCAA 
  UCCU UGUUCAGG GAGAUGACACC AC UCGA C GAUGGG C      GGCU AGU    U
  |||| |||||||| ||||||||||| || |||| | |||||| |      |||| |||     
  AGGA ACAAGUCC CUCUACUGUGG UG GGUU G CUACCU G      CCGG UCA    G
GC    U        C           G  A    C C      - UGUGUA    A   UUGA

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