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

gma-miR5786

Organism

Glycine max

Species

Mature miRNA Sequence(5'-3')

UGUCGCAGGAUAGAGGGCACU

miRBase

Precursor miRNA Sequence(5'-3')

GAGAGAGUCUUGUCGCAGGAUAGAGGGCACUGGGUAUGGCAUGAUGAUGCAUGCAAAAAUAUAUUAUGUGUGCUGAAAUCAUAAUUAAGCAUGUAUUUAUAAAUAUAGCUAGUGUCCCUGUCUUGCGACAAGAUUCUCUG

miRBase

Precursor miRNA Structure(5'-3') 

G                      A         G    GCAUGAU         AAAAAUAU      U  GC 
 AGAGAGUCUUGUCGCAGGAUAG GGGCACUGG UAUG       GAUGCAUGC        AUUAUG GU  U
 |||||||||||||||||||||| ||||||||| ||||       |||||||||        |||||| ||   
 UCUCUUAGAACAGCGUUCUGUC CCUGUGAUC AUAU       UUAUGUACG        UAAUAC UA  A
G                      -         G    -AAAUAU         -----AAU      -  AA

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

vvi-miR3627-5p      UUGUCGCAGGAGAGACGGCACU-
gma-miR5786         -UGUCGCAGGAUAGAGGGCACU-
ptc-miR3627b        -UGUCGCAGGAGAGAUGGCGCUA
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