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

ath-miR173-3p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UGAUUCUCUGUGUAAGCGAAA

miRBase

Precursor miRNA Sequence(5'-3')

UAAGUACUUUCGCUUGCAGAGAGAAAUCACAGUGGUCAAAAAAGUUGUAGUUUUCUUAAAGUCUCUUUCCUCUGUGAUUCUCUGUGUAAGCGAAAGAGCUUG

miRBase

Precursor miRNA Structure(5'-3') 

     A            G      A      U  UCAAAAA G  GU  U 
UAAGU CUUUCGCUUGCA AGAGAA UCACAG GG       A UU  AG U
||||| |||||||||||| |||||| |||||| ||       | ||  ||  
GUUCG GAAAGCGAAUGU UCUCUU AGUGUC CC       U AA  UC C
     A            G      -      U  -UUUCUC G  AU  U

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

cru-miR173          ---UUCGCUUGCAGAGAGAAAUCAC
ath-miR173-5p       ---UUCGCUUGCAGAGAGAAAUCAC
aly-miR173a-5p      ---UUCGCUUGCAGAGAGAAAUCAC
aly-miR173b-5p      ---UUCGCUUGCAGAGAGAAAUCAC
ath-miR173-3p       UGAUUCUCUGUGUAAGCGAAA----
                       *** **     ** ****