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-miR860-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

UCAAUAGAUUGGACUAUAUAU

miRBase

Precursor miRNA Sequence(5'-3')

UCUUUUCUUGGAGAAAUGUCUUGGUCAAAUUCAAUAUAUAUAGUCCAAUCUAUUGAAGUACUAGUACACCAGCUCUAAUAAGCUGAUGUAGGUAAGUAGUUCAAUAGAUUGGACUAUAUAUAUUAAAUUUGACUAAGAGAUAAACUAGAGAAUGAGA

miRBase

Precursor miRNA Structure(5'-3') 

    -     GGAGAA  G             C                         G    --AG    C     CU 
UCUU UUCUU      AU UCUUGGUCAAAUU AAUAUAUAUAGUCCAAUCUAUUGAA UACU    UACA CAGCU  A
|||| |||||      || ||||||||||||| ||||||||||||||||||||||||| ||||    |||| |||||   
AGAG AAGAG      UA AGAAUCAGUUUAA UUAUAUAUAUCAGGUUAGAUAACUU AUGA    AUGU GUCGA  A
    U     AUCAAA  G             A                         G    AUGG    A     AU

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
                   ****** *********  ***