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-miR167c-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

AGGUCAUGCUGGUAGUUUCAC

miRBase

Precursor miRNA Sequence(5'-3')

CAGUAGCAGUUAAGCUGCCAGCAUGAUCUUGUCUUCCUCUCUUAAGUUUCAUAUAUAAUCAAGUUAAUAUAAAGAUUUUGUACAAUUCUUGUUCUUAUUAUAUGAUCAUAGCUUAGAGAGAGAGAGACUAGGUCAUGCUGGUAGUUUCACCUGCUAAUG

miRBase

Precursor miRNA Structure(5'-3') 

CAG      -UU                  U     C       -     ----       -   --U    -UUAA        
   UAGCAG   AAGCUGCCAGCAUGAUCU GUCUU CUCUCUU AAGUU    UCAUAUA UAA   CAAG     UAUAAAG 
   ||||||   |||||||||||||||||| ||||| ||||||| |||||    ||||||| |||   ||||     |||||| A
   AUCGUC   UUUGAUGGUCGUACUGGA CAGAG GAGAGAG UUCGA    AGUAUAU AUU   GUUC     AUGUUUU 
GUA      CAC                  U     A       A     UACU       U   CUU    UUAAC

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

osa-miR167h-3p      AGGUCAUGCUGU-AGUUUCAUC
zma-miR167g-3p      -GGUCAUGCUGU-AGUUUCAUC
bdi-miR167e-3p      AGGUCAUGCUGG-AGUUUCAUC
aly-miR167c-3p      AGGUCAUGCUGGUAGUUUCAC-
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