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

aly-miR169i-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGCAGUCUCCUUGGAUAUC

miRBase

Precursor miRNA Sequence(5'-3')

GAAGGAGAUGUCAAAGAUGAGUAGGAGAAUCAUAUUUGGUAGCCAAGGAUGACUUGCCUGAUUCCUUUGCGUAAAAUGGUUAGUGUCAUGUUUGACAAAGUGACUAUCAAUUACAUCAAGCGAUGACCAUUUUGCUUAUAAAAAAGAUGUCAGGCAGUCUCCUUGGAUAUCCUUAUAUGUUCUUCUCUUUCAUCUCAGACAUUCAUCUUC

miRBase

Precursor miRNA Structure(5'-3') 

     A  -    AA       -U       U     UU  -UAG       U    U       UC    -----GC           AGU   AU      -CAAAG     
GAAGG GA UGUC  AGAUGAG  AGGAGAA CAUAU  GG    CCAAGGA GACU GCCUGAU  CUUU       GUAAAAUGGUU   GUC  GUUUGA      UGAC 
||||| || ||||  |||||||  ||||||| |||||  ||    ||||||| |||| |||||||  ||||       |||||||||||   |||  ||||||      ||| U
CUUCU CU ACAG  UCUACUU  UCUUCUU GUAUA  CC    GGUUCCU CUGA CGGACUG  GAAA       CGUUUUACCAG   UAG  CGAACU      ACUC 
     A  U    AC       UC       -     UU  UAUA       -    -       UA    AAAUAUU           ---   --      ACAUUA

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

mtr-miR169l-3p      GGCAAGUUUUUCCUUGGCUAUA
stu-miR169e-3p      -GCAAGUUAUCC--UGGCUAUC
aly-miR169i-3p      -GGCAGUCUCCU--UGGAUAUC
                     *  ***       *** ***