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-miR319d

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

AGGAAACUGUUUAGUCCAACC

miRBase

Precursor miRNA Sequence(5'-3')

AGAGAAGGAAACUGUUUAGUCCAACCCAAGGUGGGGUAUUGGAACUGAUCUUUGCUGCUGAAUCAUUGGCUCAUGAGCAUGUCAAAGAAGAUGAUUGAACAUUCUGGACAUGUUCUUGCUCCAAUGAUGCAGGAGCUGAGCUCGGUUUUUCACCGCCUUUUCUUGGACUGAAGGGUUUCCUUCCCUUC

miRBase

Precursor miRNA Structure(5'-3') 

--  A          G          CCC       GGUAUU        U   U   G   A        CU  U         AA    GA GA 
  AG GAAGGAAACU UUUAGUCCAA   AAGGUGG      GGAACUGA CUU GCU CUG AUCAUUGG  CA GAGCAUGUC  AGAA  U  U
  || |||||||||| ||||||||||   |||||||      |||||||| ||| ||| ||| ||||||||  || |||||||||  ||||  |   
  UC CUUCCUUUGG AAGUCAGGUU   UUCCGCC      UUUUGGCU GAG CGA GAC UAGUAACC  GU CUUGUACAG  UCUU  A  A
CU  C          G          CUU       ---ACU        C   U   G   G        UC  U         -G    AC AG

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

stu-miR319-5p      AGGAAACUGUUUAGUCCAACC
sly-miR319d        AGGAAACUGUUUAGUCCAACC
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