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-miR169a-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GCAGUCUCCUUGGCUACU

miRBase

Precursor miRNA Sequence(5'-3')

UAGCCAAGGAUGACUUGCCUGCAUCAUUAAUUAAUUCUUGAGGCUAGCUUGUGAUAUAUCAUGUAUAUGACAUGUAUACAAGCAUUCUUCUUUGAUGGCCAGGCAGUCUCCUUGGCUACU

miRBase

Precursor miRNA Structure(5'-3') 

--          U    U     --     UUAAUUAAUUCUU    CUA       -    A    G 
  UAGCCAAGGA GACU GCCUG  CAUCA             GAGG   GCUUGUG AUAU UCAU U
  |||||||||| |||| |||||  |||||             ||||   ||||||| |||| ||||  
  AUCGGUUCCU CUGA CGGAC  GUAGU             CUUC   CGAACAU UGUA AGUA A
UC          -    -     CG     -----------UU    UUA       A    C    U

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

aly-miR169k-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169l-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169j-3p      GGCAGUCU---CCUUGGCUAUC
aly-miR169h-3p      GGCAGUCU---CCUUGGCUAUU
stu-miR169a-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169b-3p      -GCAGUCU---CCUUGGCUACU
stu-miR169c-3p      -GCAGUCU---CCUUGGCUACC
mtr-miR169d-3p      GGCAGGUCAUCCUUCGGCUAUA
mtr-miR169e-3p      GGCAGGUCAUCCUUCGGCUAUA
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