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-miR159b-5p

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

GAGCUCCUUGAAGUUCAAUGG

miRBase

Precursor miRNA Sequence(5'-3')

GGAAGAGCUCCUUGAAGUUCAAUGGAGGGUUUAGCAGGGUGAAGUAAAGCUGCUAAGCUAUGGAUCCCAUAAGCCUUAUCAAAUUCAAUAUAAUUGAUGAUAAGGUUUUUUUUAUGGAUGCCAUAUCUCAGGAGCUUUCACUUACCCCUUUAAUGGCUUCACUCUUCUUUGGAUUGAAGGGAGCUCUUCAUCUCUC

miRBase

Precursor miRNA Structure(5'-3') 

------G            GA       U       UU   ------    UG    -      G  A  C     AUC      -----         AAU       
       GAAGAGCUCCUU  AGUUCAA GGAGGGU  AGC      AGGG  AAGU AAAGCU CU AG UAUGG   CCAUAA     GCCUUAUCA   UCAAUA 
       ||||||||||||  ||||||| |||||||  |||      ||||  |||| |||||| || || |||||   ||||||     |||||||||   ||||| U
       CUUCUCGAGGGA  UUAGGUU CUUCUCA  UCG      UCCC  UUCA UUUCGA GA UC AUACC   GGUAUU     UGGAAUAGU   AGUUAU 
CUCUCUA            AG       U       CU   GUAAUU    CA    C      G  C  U     GUA      UUUUU         ---

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

ath-miR159b-5p      GAGCUCCUUGAAGUUCAAUGG
aly-miR159b-5p      GAGCUCCUUGAAGUUCAAUGG
gma-miR159a-5p      GAGCUCCUUGAAGUCCAAUUG
gma-miR159e-5p      GAGCUCCUUGAAGUCCAAUU-
fve-miR159a-5p      GAGCUCCUUGAAGUCCAAUAG
aly-miR159a-5p      GAGCUCCUUGAAGUUCAAACG
csi-miR159a-5p      GAGCUCCUUGAAGUCCAAAAG
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