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-miR169j-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UAGCCAGGAAUGGCUUGCCUA

miRBase

Precursor miRNA Sequence(5'-3')

CUUACAUGGAGAUAAGGAGCCUACCUCUGUUAGCCAGGAAUGGCUUGCCUACGCACACAUUUUUCGGUUCAUCACAGGGGCAAAACUAACUUGGAGAUAGCCCCUAGUAUGAUGGACGGAGUGUGGCUGCAUGGUCAAGCCUUCCUGACUAGGAGAGUGCUCCUCAUCCCCCAUGCUAGGCUG

miRBase

Precursor miRNA Structure(5'-3') 

---    -     -A   A      CUAC    G    C      U      C   C   CA   UU   G       --  -      AAAACUAA 
   CUUA CAUGG  GAU AGGAGC    CUCU UUAG CAGGAA GGCUUG CUA GCA  CAU  UUC GUUCAUC  AC AGGGGC        C
   |||| |||||  ||| ||||||    |||| |||| |||||| |||||| ||| |||  |||  ||| |||||||  || ||||||         
   GGAU GUACC  CUA UCCUCG    GAGA GAUC GUCCUU CCGAAC GGU CGU  GUG  GAG CAGGUAG  UG UCCCCG        G
GUC    C     CC   C      ---U    G    A      -      U   A   CG   -U   G       UA  A      AUAGAGGU

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

sbi-miR169q         -UAGCCAAGAAUGGCUUGCCUA
bdi-miR169j-5p      -UAGCCAGGAAUGGCUUGCCUA
sbi-miR169p         -UAGCCAAGAAUGGCUUGCCUA
zma-miR169q-5p      -UAGCCAAGAAUGGCUUGCCUA
zma-miR169n-5p      -UAGCCAAGAAUGGCUUGCCUA
zma-miR169m-5p      -UAGCCAAGAAUGGCUUGCCUA
bdi-miR169i         CCAGCCAAGAAUGGCUUGCCUA
zos-miR169a         -CAGCCAAGGAUGACUUGCCUA
zos-miR169b         -CAGCCAAGGAUGACUUGCCUA
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