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

ptc-miR169o

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

AAGCCAAGGAUGACUUGCCUG

miRBase

Precursor miRNA Sequence(5'-3')

CCUUGCGUGGAAGCCAAGGAUGACUUGCCUGAGAAUUUUAGGAAGGUUUCUAUAUGAAAGCUUUUUAUUAGUUUUGCAGGAAGUCAACCUUGGCUUUCCUAUAG

miRBase

Precursor miRNA Structure(5'-3') 

CCUUGC U           A      G    -      -U       G    U 
      G GGAAGCCAAGG UGACUU CCUG AGAAUU  UAGGAAG UUUC A
      | ||||||||||| |||||| |||| ||||||  ||||||| |||| U
      C CUUUCGGUUCC ACUGAA GGAC UUUUGA  AUUUUUC AAAG G
-GAUAU -           A      -    G      UU       G    U

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

hvu-miR169        AAGCCAAGGAUGAGUUGCCUG-
mtr-miR169f       AAGCCAAGGAUGACUUGCCUA-
ptc-miR169o       AAGCCAAGGAUGACUUGCCUG-
ptc-miR169ag      AAGCCAAGGGUGACUUGCCUGA
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