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-miR169af

Organism

Populus trichocarpa

Species

Mature miRNA Sequence(5'-3')

UAGCCAAGGACGACUUGCCCA

miRBase

Precursor miRNA Sequence(5'-3')

CUUGUUUGGUAGCCAAGGACGACUUGCCCACCACCAUCUCAGUUGGGUCCAAUAUAUUACUGGGCACCUUCCAUUUGGUUUUGGGCAAGCACCUUGGCUAGUUGACA

miRBase

Precursor miRNA Structure(5'-3') 

CU    U G         AC A        CC    UCUCA UU  -     AUA 
  UGUU G UAGCCAAGG  G CUUGCCCA  ACCA     G  GG GUCCA   U
  |||| | |||||||||  | ||||||||  ||||     |  || |||||   A
  ACAG U AUCGGUUCC  C GAACGGGU  UGGU     C  CC CGGGU   A
--    U G         -A -        UU    -UUAC UU  A     CAU

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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