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-miR162-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UGGAGGCAGCGGUUCAUCGAUC

miRBase

Precursor miRNA Sequence(5'-3')

AAACUGUUUACACUGAUCUGUGCUGCUGAUAAAUCUUAAUUUUUUUUUUGAAUUUUUAUUUAACAGAAAAUAGAGAGAGUGAAGUCACUGGAGGCAGCGGUUCAUCGAUCACUUUGUGCAAAUUUUGUUGUGAAAAAUAACACAAAAUACAUGAAUCGAUCGAUAAACCUCUGCAUCCAGCGCUCACUCCAACUCUAUUC

miRBase

Precursor miRNA Structure(5'-3') 

AAACUGUUUACACUGAUCUGUGCUGCUGAUAAAUCUUAAUUUUUUUUUUGAAUUUUUAUUUAACAGAA       --A      A U A     G    C    C       AC      CAA       U  GAA 
                                                                    AAUAGAG   GAGUGA G C CUGGA GCAG GGUU AUCGAUC  UUUGUG   AUUUUGU GU   A
                                                                    |||||||   |||||| | | ||||| |||| |||| |||||||  ||||||   ||||||| ||    
                                                                    UUAUCUC   CUCACU C G GACCU CGUC CCAA UAGCUAG  AAGUAC   UAAAACA CA   U
-------------------------------------------------------------------C       AAC      - - C     A    U    A       CU      --A       -  AUA

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

ath-miR162a-5p      UGGAGGCAGCGGUUCAUCGAUC
ath-miR162b-5p      UGGAGGCAGCGGUUCAUCGAUC
csi-miR162-5p       UGGAGGCAGCGGUUCAUCGAUC
aly-miR162a-5p      -GGAGGCAGCGGUUCAUCGAUC
aly-miR162b-5p      -GGAGGCAGCGGUUCAUCGAUC
stu-miR162a-5p      -GGAGGCAGCGGUUCAUCGAUC
fve-miR162-5p       -GGAGGCAGCGGUUCAUCGAUC
stu-miR162b-5p      -GGAGGCAGCGGUUCAUCGAUC
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