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-miR6022

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

UGGAAGGGAGAAUAUCCAGGA

miRBase

Precursor miRNA Sequence(5'-3')

CUGAACUGAACAAUACGAUCCUGGAUAUUCUCCUUUCCAUCACUAACUUAUUUAGGCUCAGAGUUUCAAGUUGUAAGGUCCUCUUCCUGAGUCGAUUCAAAACCUUAUGAACCUAACGCGACUUGAUCUUAAGUUACAUUUACGAAACCCCAAUCAUGGGUAGAGGACUCUGUAGUCGGUCUAAAUAACUUAGUGAUGGAAGGGAGAAUAUCCAGGAUGGUAUUGUUCCGUUCAGGG

miRBase

Precursor miRNA Structure(5'-3') 

--      U         G                             C           -----       UCAAGUUGUAAGGUCCUCUUCCUGAGUCGAUUCAAAACCUUAUGAACCU 
  CUGAAC GAACAAUAC AUCCUGGAUAUUCUCCUUUCCAUCACUAA UUAUUUAGGCU     CAGAGUU                                                 A
  |||||| ||||||||| ||||||||||||||||||||||||||||| |||||||||||     |||||||                                                  
  GACUUG CUUGUUAUG UAGGACCUAUAAGAGGGAAGGUAGUGAUU AAUAAAUCUGG     GUCUCAG                                                 G
GG      C         G                             C           CUGAU       GAGAUGGGUACUAACCCCAAAGCAUUUACAUUGAAUUCUAGUUCAGCGC

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

stu-miR6022      UGGAAGGGAGAAUAUCCAGGA
sly-miR6022      UGGAAGGGAGAAUAUCCAGGA
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