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-miR167b-3p

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

AGGUCAUCUAGCAGCUUCAAU

miRBase

Precursor miRNA Sequence(5'-3')

UCUCACUUCUGUAUGUUGGUUUUUUGAGAGGUUAAAGCUGCCAGCAUGAUCUGGUAAGAACAAAAUCCUAUUAUAUUUCAUCUAUAUUUUCUUAUAAAAAGAAGAAAUGAAUUUAAAUUUGAAUUUUUUGUAAAAAAAAAAUGUUGAGGUUUUUAAUUUCCUUCUUUUGGAUUUGAAAAAAAGAAAAUUAAAUUUUUGUAAGGAUUUUAUUUCUUUGAAGAAAAUAUAGAUAGAUAGCUUUGGUUCCAUCAGGUCAUCUAGCAGCUUCAAUCACUCACCAACAAUACACACAAAGGA

miRBase

Precursor miRNA Structure(5'-3') 

UCUCACUUC     -      UUUUU   A    A       C  C          AA    AA  UC     AUAUUUC              AUAAAAAGAAGAAAUGAAUUUAAAUUUGAAUUUUUUGUAAAAAAAAAAUGUUGAGGUUUUU 
         UGUAU GUUGGU     GAG GGUU AAGCUGC AG AUGAUCUGGU  GAAC  AA  CUAUU       AUCUAUAUUUUCUU                                                             A
         ||||| ||||||     ||| |||| ||||||| || ||||||||||  ||||  ||  |||||       ||||||||||||||                                                              
         ACAUA CAACCA     CUC CUAA UUCGACG UC UACUGGACUA  CUUG  UU  GAUAG       UAGAUAUAAAAGAA                                                             U
AGGAAACAC     A      -----   A    C       A  -          -C    -G  UC     ------A              GUUUCUUUAUUUUAGGAAUGUUUUUAAAUUAAAAGAAAAAAAGUUUAGGUUUUCUUCCUUU

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

csi-miR167c-3p      AGGUCAUCUUGCAGCUUCAAU
sly-miR167b-3p      AGGUCAUCUAGCAGCUUCAAU
aly-miR167d-3p      AGGUCAUCCUGCAGCUUCAGU
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