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-miR400-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UAUGAGAGUAUUAUAAGUCAC

miRBase

Precursor miRNA Sequence(5'-3')

CGACCAAAAGGUAUAUUCUUUAAUUGUUCUUAGGAAGAUGUUGAAGAUUGUUUAUGAGAGUAUUAUAAGUCACUACAUUUGGUAUGCAAAAGUUUUGUUUCCCAAACGAAGUGACUUAUAAUAAUCUCAUGAAUGGAUUUUGCAACUCUUAAAGAGAAAAUUAUAAUUCUUUUGUUG

miRBase

Precursor miRNA Structure(5'-3') 

    C      UAU   CUU     G     AGG    U    -      -G         G              A A     UAU       
CGAC AAAAGG   AUU   UAAUU UUCUU   AAGA GUUG AAGAUU  UUUAUGAGA UAUUAUAAGUCACU C UUUGG   GCAAAA 
|||| ||||||   |||   ||||| |||||   |||| |||| ||||||  ||||||||| |||||||||||||| | |||||   ||||| G
GUUG UUUUCU   UAA   AUUAA AAGAG   UUCU CAAC UUUUAG  AAGUACUCU AUAAUAUUCAGUGA G AAACC   UGUUUU 
    -      ---   --U     -     AAA    -    G      GU         A              A C     CUU

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

bra-miR400         UAUGAGAGUAUUAUAAGUCAC
aly-miR400-5p      UAUGAGAGUAUUAUAAGUCAC
ath-miR400         UAUGAGAGUAUUAUAAGUCAC
                   *********************