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-miR169ac

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGGACGACUUGCCCA

miRBase

Precursor miRNA Sequence(5'-3')

UCUUGUUUGUAGCCAAGGACGACUUGCCCACAAUAUGUAUCGUGAGCGUUUCCAAUUUGCAACCUCAUACUUGGUUGUUUUGGGCAGUCUCCUUGGCUAUGCAGAU

miRBase

Precursor miRNA Structure(5'-3') 

UC    UU           C    U     C    -UGUAUC     C   U CA 
  UUGU  GUAGCCAAGGA GACU GCCCA AAUA       GUGAG GUU C  A
  ||||  ||||||||||| |||| ||||| ||||       ||||| ||| |   
  GACG  UAUCGGUUCCU CUGA CGGGU UUGU       UACUC CAA G  U
UA    --           -    -     U    UGGUUCA     -   C UU

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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