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-miR169e-3p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UGGCAAGCAUCUUUGGCGACU

miRBase

Precursor miRNA Sequence(5'-3')

AGGAGGAGAGGCCUUACAUGAAUUAGAAGAGUUUCUAUUUGUUUAGUAGCCAAGGAUGACUUGCCUUUCAUCAAUGCCUUUUGUAAAAUGGAAAUUGAUUACAACACUUUCUAUGGUAUUGGGAAAAUGAGUGGCAAGCAUCUUUGGCGACUUGACAAACUCUUCUUUGUCAUGUUAGUCCAUCUUCUUCCU

miRBase

Precursor miRNA Structure(5'-3') 

-A        -  C  U      AUU         UCUAUU    U   A          A      U     -----       UUUUGUAAA       U  AU 
  GGAGGAGA GG CU ACAUGA   AGAAGAGUU      UGUU AGU GCCAAGGAUG CUUGCC UUCAU     CAAUGCC         AUGGAAA UG  U
  |||||||| || || ||||||   |||||||||      |||| ||| |||||||||| |||||| |||||     |||||||         ||||||| ||  A
  CUUCUUCU CC GA UGUACU   UCUUCUCAA      ACAG UCA CGGUUUCUAC GAACGG GAGUA     GUUAUGG         UAUCUUU AC  A
UC        A  U  U      GUU         ------    U   G          -      U     AAAGG       ---------       C  AA

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

sly-miR169e-3p      UGGCAAGCAUCUUUGGCGACU
stu-miR169f-3p      --GCAAGCAUCCUUGGCGACU
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