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

sly-miR171c

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UAUUGGUGCGGUUCAAUGAGA

miRBase

Precursor miRNA Sequence(5'-3')

CAAAUGGAUGAAUACACGAGAUAUUGGUGCGGUUCAAUGAGAAAGCAGUACUUAAGAACAUUUUUGAGUCUACUUUUUGAUUGAGCCGCGCCAAUAUCACGUGUAGCUAAAUCUUUAGUUG

miRBase

Precursor miRNA Structure(5'-3') 

--CAAAU    --GAA      A                   G      C  U        A 
       GGAU     UACACG GAUAUUGGUGCGGUUCAAU AGAAAG AG ACUUAAGA C
       ||||     |||||| ||||||||||||||||||| |||||| || ||||||||  
       UCUA     AUGUGC CUAUAACCGCGCCGAGUUA UUUUUC UC UGAGUUUU U
GUUGAUU    AAUCG      A                   G      A  -        U

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

sly-miR171b-5p      AUAUUGGUGCGGUUCAAUUAG-
sly-miR171c         -UAUUGGUGCGGUUCAAUGAGA
ppe-miR171e         UUAUUGAACCGGACCAAUAUC-
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