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-miR169e

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGGAGACUGCCUACG

miRBase

Precursor miRNA Sequence(5'-3')

GCAAUAGGGGCCACUCAGGCUAGCCAAGGAGACUGCCUACGAACCAACACAAAGGUCCACAAUUCUGAUCCUUUGUAAACAAAGGACAUAGGCAAGUCAUCCUUGGCUAUCAGAGGCAGGCCCUUAUU

miRBase

Precursor miRNA Structure(5'-3') 

GC          --A   A  C          -    -     CGAACCAACACAAAGGUCCACAA 
  AAUAGGGGCC   CUC GG UAGCCAAGGA GACU GCCUA                       U
  ||||||||||   ||| || |||||||||| |||| |||||                       U
  UUAUUCCCGG   GAG CU AUCGGUUCCU CUGA CGGAU                       G
--          ACG   A  -          A    A     ACAGGAAACAAAUGUUUCCUAGU

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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