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

cru-miR173

Organism

Capsella rubella

Species

Mature miRNA Sequence(5'-3')

UUCGCUUGCAGAGAGAAAUCAC

PmiREN

Precursor miRNA Sequence(5'-3')

TGCGTTGGTGACTAAGCACCTTCGCTTGCAGAGAGAAATCACAGTGTGGTCAAAAGCTTCAAAGTCTCTTTCCTCTGTGATTCTCTGTGCTAGCGGAAGAGCTTGCTCCTCCAACCTTA

PmiREN

Precursor miRNA Structure(5'-3') 

-UGC     -U  C     A C      U   G      A      UGU  UCAAAA   U 
    GUUGG  GA UAAGC C UUCGCU GCA AGAGAA UCACAG   GG      GCU C
    |||||  || ||||| | |||||| ||| |||||| ||||||   ||      |||  
    CAACC  CU GUUCG G AGGCGA CGU UCUCUU AGUGUC   CC      UGA A
AUUC     UC  C     A A      U   G      -      --U  UUUCUC   A

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

cru-miR173          ---UUCGCUUGCAGAGAGAAAUCAC
ath-miR173-5p       ---UUCGCUUGCAGAGAGAAAUCAC
aly-miR173a-5p      ---UUCGCUUGCAGAGAGAAAUCAC
aly-miR173b-5p      ---UUCGCUUGCAGAGAGAAAUCAC
ath-miR173-3p       UGAUUCUCUGUGUAAGCGAAA----
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