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

ath-miR162b-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UGGAGGCAGCGGUUCAUCGAUC

miRBase

Precursor miRNA Sequence(5'-3')

GAGUGAAGUCGCUGGAGGCAGCGGUUCAUCGAUCAAUUCCUGUGAAUAUUUAUUUUUGUUUACAAAAGCAAGAAUCGAUCGAUAAACCUCUGCAUCCAGCGCUGCUUGCUC

miRBase

Precursor miRNA Structure(5'-3') 

    G    --       G    C    C       A    ------C        UUU 
GAGU AAGU  CGCUGGA GCAG GGUU AUCGAUC AUUC       UGUGAAUA   A
|||| ||||  ||||||| |||| |||| ||||||| ||||       ||||||||    
CUCG UUCG  GCGACCU CGUC CCAA UAGCUAG UAAG       ACAUUUGU   U
    -    UC       A    U    A       C    AACGAAA        UUU

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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