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

osa-miR1432-5p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AUCAGGAGAGAUGACACCGAC

miRBase

Precursor miRNA Sequence(5'-3')

CCUGUGAUCAGGAGAGAUGACACCGACAUCGCCGGAAUUCGUUCUUGGUCUUGUGCCAUGAUGAAUUGAUGGUCCGUUUGAUGCAGGUGUCAUCUCCCCUGAACAUAGG

miRBase

Precursor miRNA Structure(5'-3') 

      A     A           GA     -C    ------       CU    C 
CCUGUG UCAGG GAGAUGACACC  CAUCG  CGGA      AUUCGUU  UGGU U
|||||| ||||| |||||||||||  |||||  ||||      |||||||  |||| U
GGAUAC AGUCC CUCUACUGUGG  GUAGU  GCCU      UAAGUAG  ACCG G
      A     C           AC     UU    GGUAGU       -U    U

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