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-miR171b-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AGAUAUUAGUGCGGUUCAAUC

miRBase

Precursor miRNA Sequence(5'-3')

UGCAAGGUAACGCGAGAUAUUAGUGCGGUUCAAUCAAAUAGUCGUCCUCUUAACUCAUGGAGAACGGUGUUGUUCGAUUGAGCCGUGCCAAUAUCACGCGGUAAACCAAAAAUGGCA

miRBase

Precursor miRNA Structure(5'-3') 

-----UGCAA   --AA    A      A             A     --    C    UAA 
          GGU    CGCG GAUAUU GUGCGGUUCAAUC AAUAG  UCGU CUCU   C
          |||    |||| |||||| ||||||||||||| |||||  |||| ||||    
          CCA    GCGC CUAUAA CGUGCCGAGUUAG UUGUU  GGCA GAGG   A
ACGGUAAAAA   AAUG    A      C             C     GU    A    UAC

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

ath-miR171b-5p      AGAUAUUAGUGCGGUUCAAUC
aly-miR171b-5p      AGAUAUUAGUGCGGUUCAAUC
ath-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
gma-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
stu-miR171d-5p      AGAUAUUGGUGCGGUUCAAUU
fve-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
aly-miR171c-5p      AGAUAUUGGUGCGGUUCAAUC
gma-miR171o-5p      AGAUAUUGGUACGGUUCAAUC
lus-miR171d         AGAUAUUGGUGCGGUUCAAUC
osa-miR171c-5p      GGAUAUUGGUGCGGUUCAAUC
bdi-miR171c-5p      CGGUAUUGGUGCGGUUCAAUC
                     * **** ** *********