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

aly-miR160c-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCGUACAAGGAGCCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

CAUAUAAUAGUUUGUCGUCGUUAUGCCUGGCUCCCUGUAUGCCACGAGUGGAUACCGAUUUUGUUAUAAAAUCGGCUGCCGGUGGCGUACAAGGAGCCAAGCAUGACCAUAAGCAUAUG

miRBase

Precursor miRNA Structure(5'-3') 

CAUAUAAUA      C UC       C       C          GA    AUA           
         GUUUGU G  GUUAUGC UGGCUCC UGUAUGCCAC  GUGG   CCGAUUUUGU 
         |||||| |  ||||||| ||||||| ||||||||||  ||||   ||||||||| U
         CGAAUA C  CAGUACG ACCGAGG ACAUGCGGUG  CGUC   GGCUAAAAUA 
----GUAUA      - --       A       A          GC    ---

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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