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-miR482e-5p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UGUGGGUGGGGUGGAAAGAUU

miRBase

Precursor miRNA Sequence(5'-3')

GAUCUGUGCUAUGGAAAUAUUGAUGGCGUUGAAAGGGAUGAGAGUAUUGGGAAGUUGUUGGUUGUGGGUGGGGUGGAAAGAUUUGAUAAAUCUAAUUUUAAAGAGAUUAAAUCUUUCCUACUCCUCCCAUACCCAUGACUUCCACUAGCUUCUCCCUUUCUUCAUUUGUCAUCUCCUUUGCUAAGUUC

miRBase

Precursor miRNA Structure(5'-3') 

  U  GU  UAU   AAUAUU       ----UU        U  G   AUUG         U   U     U     -             AAA   AAU 
GA CU  GC   GGA      GAUGGCG      GAAAGGGA GA AGU    GGAAGUUGU GGU GUGGG GGGGU GGAAAGAUUUGAU   UCU   U
|| ||  ||   |||      |||||||      |||||||| || |||    ||||||||| ||| ||||| ||||| |||||||||||||   |||    
CU GA  CG   CCU      CUACUGU      CUUUCCCU CU UCG    CCUUCAGUA CCA UACCC CCUCA CCUUUCUAAAUUA   AGA   A
  U  AU  UUU   ------       UUACUU        -  -   AUCA         C   -     U     U             --G   AAU

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

sly-miR482e-5p      UGUGGGUGGGGUGGAAAGAUU
stu-miR482e-5p      AGUGGGUGGUGUGGUAAGAUU
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