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

sly-miR408

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

ACGGGGACGAGCCAGAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

GAUAGACGGGGACGAGCCAGAGCAUGAGAUGUGCAAUUUUUGCUUUGCCUAUUCCAUGCACUGCCUCUUCCCUGGCUCUCCU

miRBase

Precursor miRNA Structure(5'-3') 

--  U  A      C   C   A     A    U    UUU 
  GA AG CGGGGA GAG CAG GCAUG GAUG GCAA   U
  || || |||||| ||| ||| ||||| |||| ||||    
  CU UC GUCCCU CUC GUC CGUAC UUAU CGUU   C
UC  C  G      U   C   A     C    C    UCG

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

stu-miR408b-5p      ACGGGGACGAGACAGAGCAUG
sly-miR408          ACGGGGACGAGCCAGAGCAUG
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