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

bra-miR860

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UCAAUACAUUGGACUACAUAU

PmiREN

Precursor miRNA Sequence(5'-3')

GTCTTCGTCAAGTGTAATGTATGTAGTCCAATCTATTGAAGTACTAGCACACCATCTCTAGTGAGATGATGTGGTTGAGTAGTTCAATACATTGGACTACATATATTACTTTTGATCAAGATGT

PmiREN

Precursor miRNA Structure(5'-3') 

--     C      U                   C       G    --AG    C      U 
  GUCUU GUCAAG GUAAUGUAUGUAGUCCAAU UAUUGAA UACU    CACA CAUCUC A
  ||||| |||||| ||||||||||||||||||| ||||||| ||||    |||| ||||||  
  UAGAA UAGUUU CAUUAUAUACAUCAGGUUA AUAACUU AUGA    GUGU GUAGAG G
UG     C      U                   C       G    GUUG    A      U

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

aly-miR860-3p      UCAAUAGAUUGGACUAUAUAU
ath-miR860         UCAAUAGAUUGGACUAUGUAU
bra-miR860         UCAAUACAUUGGACUACAUAU
                   ****** *********  ***