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

zma-miR169n-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGAAUGGCUUGCCUA

miRBase

Precursor miRNA Sequence(5'-3')

UUAGCCAAGAAUGGCUUGCCUAUCUCCACUGUUUGGUUCGUCUUGGGAGACCACCCUGAUGAUGGGUGUACUGUGUGGAUGAUGGCAGGCCUUCUUGGCUAAGC

miRBase

Precursor miRNA Structure(5'-3') 

--           U        U   -     UGUUUGGUUCGUCUUGGGAGA 
  UUAGCCAAGAA GGCUUGCC AUC UCCAC                     C
  ||||||||||| |||||||| ||| |||||                     C
  AAUCGGUUCUU CCGGACGG UAG AGGUG                     C
CG           -        -   U     UGUCAUGUGGGUAGUAGUCCC

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