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

dca-miR164-b2.0r1-17943

Organism

Daucus carota

Species

Mature miRNA Sequence(5'-3')

CAUGUGCUCUUGCUCUCCUGC

Plant sRNA Gene (Penn State Uni)

Precursor miRNA Sequence(5'-3')

AUGGGAGAGGUGAUUCAUGCUGGAGAAGCAGGGCACAUGCUAGAUGGUUUCAGCUGGAUCAGCUGAGAAUGUAGCAUGUGCUCUUGCUCUCCUGCUUGAGUCCUGUCCCAGAGGAAA

Precursor miRNA Structure(5'-3') 

------A     G   UG     U  U     A     -          G  GG           
       UGGGA AGG  AUUCA GC GGAGA GCAGG GCACAUGCUA AU  UUUCAGCUGG 
       ||||| |||  ||||| || ||||| ||||| |||||||||| ||  ||||||||| A
       ACCCU UCC  UGAGU CG CCUCU CGUUC CGUGUACGAU UA  AGAGUCGACA 
AAAGGAG     G   --     U  U     -     U          G  --

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

dca-miR164-b2.0r1-13907      CGUGUGCUCUUGCUCUCCAGC
stu-miR164-3p                CAUGUGCUCUAGCUCUCCAGC
dca-miR164-b2.0r1-17943      CAUGUGCUCUUGCUCUCCUGC
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