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-miR6022

Organism

Solanum lycopersicum

Species

Mature miRNA Sequence(5'-3')

UGGAAGGGAGAAUAUCCAGGA

miRBase

Precursor miRNA Sequence(5'-3')

CCCUGAACGGAACAAUACGAUCCUGGAUAUUAUCCUUUCCAUCACUAACUUAUUUCGGCUCAAAGUUUUAAGUUGCAAGGUACUCUUCCUAAGUCAAUUCAAAACUUCAUGAACCUAACGCGACUUGAUCUUAAGUUACAUUUUACGAAACCUCAAUCUUGGGUAGAGGACCGUGCAAUUGGUUAAAACUCGGUCUAAAUAACUUAGUGAUGGAAGGGAGAAUAUCCAGGAUGGUAUUGUUCCGUUCAGGG

miRBase

Precursor miRNA Structure(5'-3') 

                  G            A                C      C    CAA        ---      A   A    U      UCAAUUCAAAACUUCAUGAACCUAACGCGAC 
CCCUGAACGGAACAAUAC AUCCUGGAUAUU UCCUUUCCAUCACUAA UUAUUU GGCU   AGUUUUAA   GUUGCA GGU CUCU CCUAAG                               U
|||||||||||||||||| |||||||||||| |||||||||||||||| |||||| ||||   ||||||||   |||||| ||| |||| ||||||                                
GGGACUUGCCUUGUUAUG UAGGACCUAUAA AGGGAAGGUAGUGAUU AAUAAA CUGG   UCAAAAUU   UAACGU CCA GAGA GGGUUC                               A
                  G            G                C      U    --C        GGU      G   G    U      UAACUCCAAAGCAUUUUACAUUGAAUUCUAG

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

stu-miR6022      UGGAAGGGAGAAUAUCCAGGA
sly-miR6022      UGGAAGGGAGAAUAUCCAGGA
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