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

lus-miR171d

Organism

Linum usitatissimum

Species

Mature miRNA Sequence(5'-3')

AGAUAUUGGUGCGGUUCAAUC

miRBase

Precursor miRNA Sequence(5'-3')

GUCUGGUGUACGAGAUAUUGGUGCGGUUCAAUCAGAGAGCACGUCUCCUACGCACAUCGAAAUGGGGGAUGCUAUUCGAUUGAGCCGCGUCAAUAUCCCGUGUUCCUCAC

miRBase

Precursor miRNA Structure(5'-3') 

GUCU  UG    A                    A   -    CG       ---  C 
    GG  UACG GAUAUUGGUGCGGUUCAAUC GAG AGCA  UCUCCUA   CG A
    ||  |||| |||||||||||||||||||| ||| ||||  |||||||   || C
    CC  GUGC CUAUAACUGCGCCGAGUUAG CUU UCGU  AGGGGGU   GC C
CACU  UU    C                    -   A    --       AAA  U

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
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