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

stu-miR393-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

AUCAUGCGAUCUCUUCGGAAU

miRBase

Precursor miRNA Sequence(5'-3')

UCCAAAGGGAUCGCAUUGAUCCUGUGUCCCAAAUUAAUUAACUGGGGUCUAUGGGAUCAUGCGAUCUCUUCGGAAU

miRBase

Precursor miRNA Structure(5'-3') 

--   A            U         --     AAUU 
  UCC AAGGGAUCGCAU GAUCCUGUG  UCCCA    A
  ||| |||||||||||| |||||||||  |||||    A
  AGG UUCUCUAGCGUA CUAGGGUAU  GGGGU    A
UA   C            -         CU     CAAU

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

stu-miR393-3p       AUCAUGCGAUCUCUUCGGAAU-
sly-miR393          AUCAUGCGAUCUCUUCGGAAU-
csi-miR393b-3p      -UCAUGCGAUCCCUUCGGAAUU
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