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-miR1919a

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

ACGAGAGUCAUCUGUGACAGG

miRBase

Precursor miRNA Sequence(5'-3')

AUCUUCCGGUAGUCCUGUCGCAGAUGACUCUCGAUCUUGUCAUUAAGCCCCUUUCUCUAAGUCUAAUUAAUUUGAAUUCAAUGUGGUAGGACGAGAGUCAUCUGUGACAGGAUUAUGGAAGAU

miRBase

Precursor miRNA Structure(5'-3') 

        G                        A         UAAGCCCCU   UCUAAGUC 
AUCUUCCG UAGUCCUGUCGCAGAUGACUCUCG UCUUGUCAU         UUC        U
|||||||| |||||||||||||||||||||||| |||||||||         |||         
UAGAAGGU AUUAGGACAGUGUCUACUGAGAGC AGGAUGGUG         AAG        U
        -                        -         ---UAACUU   UUUAAUUA

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

sly-miR1919a         ACGAGAGUCAUCUGUGACAGG
sly-miR1919b         ACGAGAGUCAUCUGUGACAGG
stu-miR1919-3p       ACGAGAGUCAUCUGUGACAGG
sly-miR1919c-3p      ACGAGAGUCAUCUGUGACAGG
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