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-miR169d

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGGAGACUGCCUAUG

miRBase

Precursor miRNA Sequence(5'-3')

GCAAUAGGGGCCACUCAGGCUAGCCAAGGAGACUGCCUAUGAACCUCUCAAUGGUCCACACAUUCAGGUCCUUUGUAAACAAAGGACAUAGGCAAGUCAUCCUUGGCUAUCAGAGGUAGGCCCUUAUU

miRBase

Precursor miRNA Structure(5'-3') 

GC          --A   A  C          -    -       AACCUCUCAAUGGUCCACACA 
  AAUAGGGGCC   CUC GG UAGCCAAGGA GACU GCCUAUG                     U
  ||||||||||   ||| || |||||||||| |||| |||||||                     U
  UUAUUCCCGG   GAG CU AUCGGUUCCU CUGA CGGAUAC                     G
--          AUG   A  -          A    A       AGGAAACAAAUGUUUCCUGGA

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

lus-miR169a       UAGCCAAGGAUGACUUGCCCA--
lus-miR169d       UAGCCAAGGAUGACUUGCCCA--
ptc-miR169w       UAGCCAAGGAUGACUUGCCCA--
ptc-miR169v       UAGCCAAGGAUGACUUGCCCA--
ptc-miR169ac      UAGCCAAGGACGACUUGCCCA--
ptc-miR169ad      UAGCCAAGGACGACUUGCCCA--
ptc-miR169ae      UAGCCAAGGACGACUUGCCCA--
ptc-miR169af      UAGCCAAGGACGACUUGCCCA--
osa-miR169q       UAGCCAAGGA-GACU-GCCCAUG
zma-miR169d       UAGCCAAGGA-GACU-GCCUAUG
zma-miR169e       UAGCCAAGGA-GACU-GCCUACG
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