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-miR167e-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GGUCAUGCUCUGACAGCCUCACU

miRBase

Precursor miRNA Sequence(5'-3')

UGCACACAAGCAGUCUACAAGGGGAAAAAGUGAAGCUGCCAGCAUGAUCUAUCUAGCGCAUUUGGUUAGUGAAAGUAAUAAAUAAAGAAGCAAGUACGAUACUAACCCUAGCUAGGUCAUGCUCUGACAGCCUCACUCCUUCCUACUUGCGGACCCAUUUAAUUCAA

miRBase

Precursor miRNA Structure(5'-3') 

-UGCACACAAGCA    A    -     AA     A    - -C           U    CGCAUUU        AAA   AUAAAUA 
             GUCU CAAG GGGAA  AGUGA GCUG C  AGCAUGAUCUA CUAG       GGUUAGUG   GUA       A
             |||| |||| |||||  ||||| |||| |  ||||||||||| ||||       ||||||||   |||       A
             CAGG GUUC UCCUU  UCACU CGAC G  UCGUACUGGAU GAUC       CCAAUCAU   CAU       A
AACUUAAUUUACC    C    A     CC     C    A UC           C    -------        -AG   GAACGAA

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

aly-miR167b-3p      GGUCAUGCUCUGACAGCCUCACU
csi-miR167e-3p      GGUCAUGCUCUGACAGCCUCACU
stu-miR167c-3p      GGUCAUGCUCGGACAGCCUCACU
osa-miR167c-3p      GGUCAUGCUGCGGCAGCCUCACU
zma-miR167d-3p      GGUCAUGCUGCUGCAGCCUCACU
zma-miR167c-3p      GAUCAUGCUGUGGCAGCCUCACU
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