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

zos-miR169b

Organism

Zostera marina

Species

Mature miRNA Sequence(5'-3')

CAGCCAAGGAUGACUUGCCUA

PmiREN

Precursor miRNA Sequence(5'-3')

GAAGTGTAGGAAGTATGATGCAGCCAAGGATGACTTGCCTACTCTTTTGATATATGTCAATTCAGAATCGGAATTGTTCATAGAAGGAAGTTGGCAAGTTGGCCTTGGCTACATATTACTTCCTCATGCTCAT

PmiREN

Precursor miRNA Structure(5'-3') 

--  -A   U        UG   C        AU        U   -     GAUA    -U      AG 
  GA  GUG AGGAAGUA  AUG AGCCAAGG  GACUUGCC ACU CUUUU    UAUG  CAAUUC  A
  ||  ||| ||||||||  ||| ||||||||  |||||||| ||| |||||    ||||  ||||||  A
  CU  UAC UCCUUCAU  UAC UCGGUUCC  UUGAACGG UGA GGAAG    AUAC  GUUAAG  G
UA  CG   -        UA   A        GG        U   A     ----    UU      GC

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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