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

bdi-miR171c-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

CGGUAUUGGUGCGGUUCAAUC

miRBase

Precursor miRNA Sequence(5'-3')

CGCGGUAUUGGUGCGGUUCAAUCAGAAAGCUGGCGCUCCGGACGCAAAAGGGGUUCCUCUCUUUGAUUGAGCCGUGCCAAUAUCAC

miRBase

Precursor miRNA Structure(5'-3') 

CGC                       A  CU  C     GGAC 
   GGUAUUGGUGCGGUUCAAUCAGA AG  GG GCUCC    G
   ||||||||||||||||||||||| ||  || |||||     
   CUAUAACCGUGCCGAGUUAGUUU UC  CC UGGGG    A
-CA                       C  -U  U     AAAA

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