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

csi-miR164a-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

CAUGUGCCCUUCUUCCCCAUC

miRBase

Precursor miRNA Sequence(5'-3')

GUGUAGAGCAAGAUGGAGAAGCAGGGCACGUGCAUUACUAACUCAACCGCACAUACAUCUACUAACAAAAAUUAAUUAAUCCACACAUUUUGAAGAAACCAAAUCAAGAAGCAGCAUGCUCUUUCUGUUGUUAUAGCUCAGUCAUGAGUUGAGUUAUUUCUUCAUGUGCCCUUCUUCCCCAUCAUGACCGCGGCACCUUGUGUGUGUGUGUGUAUCAUCAGGGAUCAGCUCAAGAUCUG

miRBase

Precursor miRNA Structure(5'-3') 

GUGUAGAGCAAGAUGGAGAAGCAGGGCACGUGCAUUACUAACUCAACCGCACAUACAUCUACUAACAAAAAUUAAUUAAUCCACACAUUUUGAAGAAACCAAAUCAAGAAGCAGCAUGCUCUUUCUGUUGUUAUAGCUCAGUCAUGAGUUGAGUUAUUUCUUCAUGUGCCCUUCUUCCCCAUCAUGACCGCGGCAC    U  GU  G G  UA 
                                                                                                                                                                                                    CUUG GU  GU U UG  U
                                                                                                                                                                                                    |||| ||  || | ||   
                                                                                                                                                                                                    GAAC CG  UA G AC  U
-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GUCUA    U  AC  G G  UA

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

ath-miR164b-3p      CAUGUGCCCAUCUUCACCAUC
aly-miR164b-3p      CAUGUGCCCAUCUUCACCAUC
zma-miR164c-3p      CAUGUGCCCUUCUUCUCCAUC
zma-miR164h-3p      CAUGUGCCCUUCUUCUCCAUC
csi-miR164a-3p      CAUGUGCCCUUCUUCCCCAUC
zma-miR164b-3p      -AUGUGCCCAUCUUCUCCACC
bdi-miR164a-3p      CAUGUGCCCUUCUUCUCCACC
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