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

osa-miR5492

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AGAAGGAGAAUAGAUAUGGUU

miRBase

Precursor miRNA Sequence(5'-3')

ACAAUGAGGGAGAAGGAGAAUAGAUAUGGUUGAGUUAAUUAUAGAAAUCAUUCUGGUGAUUGGAUUUAAUCAGUGUCUUCUUGGGAAGUGCAACUAAUAAAAGUUACACUUUUUUUUCUAAUAAUUGUGGUUUUAGACUCAAUAACUGUUGUUUCUCCUCUCACCCUAUUCAU

miRBase

Precursor miRNA Structure(5'-3') 

ACAAUG    A  -       UA    -UG        ---------      -     UCAUUCUGGUGAUUGGAUUUAAUCAGUGUCUU 
      AGGG GA AGGAGAA  GAUA   GUUGAGUU         AAUUAU AGAAA                                C
      |||| || |||||||  ||||   ||||||||         |||||| |||||                                U
      UCCC CU UCCUCUU  UUGU   UAACUCAG         UUAAUA UCUUU                                G
UACUUA    A  C       UG    CAA        AUUUUGGUG      A     UUUUUCACAUUGAAAAUAAUCAACGUGAAGGG

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

mtr-miR5268a      CCAGAGUGGAAUGAAGAUAUGGUU
mtr-miR5268b      CCAGAGUGGAAUGAAGAUAUGGUU
osa-miR5492       --AGAA-GGAGAAUAGAUAUGGUU
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