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-miR845a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

CGGCUCUGAUACCAGUUGAUG

miRBase

Precursor miRNA Sequence(5'-3')

UCAAUAGUUCCAUCGCUCGGUUUCCAUCACGUCGAUUGGUGUCAGAGCCACGCCUAUGAAAAAUUUGCGCGGCUCUGAUACCAGUUGAUGCAAUGGAAACAUCGAUAUUGCCUGA

miRBase

Precursor miRNA Structure(5'-3') 

UCAAUA  UCC    CUCG        CA                    A   CU  G 
      GU   AUCG    GUUUCCAU  CGUCGAUUGGUGUCAGAGCC CGC  AU A
      ||   ||||    ||||||||  |||||||||||||||||||| |||  || A
      CG   UAGC    CAAAGGUA  GUAGUUGACCAUAGUCUCGG GCG  UA A
--AGUC  UUA    --UA        AC                    C   UU  A

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

osa-miR1873         UCAACAUGGUAUCAGAGCUGGAAG
aly-miR845a-3p      CGGCUCUGAUACCAG---UUGAUG
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