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-miR160b-3p

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

GCGUGCAAGGAGCCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

AAGGUUUGGUUUUGAUCGGCUUGAGAGCGUGCCUGGCUCCCUGUAUGCCACUCAUGUAGCCCAAUCCAUGGUGUGUUUGGAUGCUGUGGGUGGCGUGCAAGGAGCCAAGCAUGCGUGCCAUGAUCUCUCUUUCUGCCUU

miRBase

Precursor miRNA Structure(5'-3') 

     --UU  UUUU    --   UUGAGA      C       C              GU   CCA     UGG 
AAGGU    GG    GAUC  GGC      GCGUGC UGGCUCC UGUAUGCCACUCAU  AGC   AUCCA   U
|||||    ||    ||||  |||      |||||| ||||||| ||||||||||||||  |||   |||||   G
UUCCG    UC    CUAG  CCG      CGUACG ACCGAGG ACGUGCGGUGGGUG  UCG   UAGGU   U
     UCUU  -UCU    UA   ----UG      A       A              --   ---     UUG

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

osa-miR160a-3p      GCGUGCA-AGGAGCCAAGCAUG-
osa-miR160b-3p      GCGUGCA-AGGAGCCAAGCAUG-
osa-miR160d-3p      GCGUGCG-AGGAGCCAAGCAUG-
aly-miR160c-3p      GCGUACA-AGGAGCCAAGCAUG-
aly-miR160b-3p      GCGUACAGAGUAGUCAAGCAUG-
ath-miR160c-3p      -CGUACA-AGGAGUCAAGCAUGA
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