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

zma-miR171h-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

UGGUAUUGUUUCGGCUCAUGU

miRBase

Precursor miRNA Sequence(5'-3')

GGGAGGAAGGAGACGACAUGGCGUGGUAUUGUUUCGGCUCAUGUCCUUCUUCGAUCGAGUCUUGCCGUUGGAUUUGGAUGUGAUGUGAGCCGAACCAAUAUCACUCAUGUACUCUUCAUUCCCA

miRBase

Precursor miRNA Structure(5'-3') 

-     GA     ACG      C         U             - U   UC    G  UCU 
 GGGAG  AGGAG   ACAUGG GUGGUAUUG UUCGGCUCAUGUC C UCU  GAUC AG   U
 |||||  |||||   |||||| ||||||||| ||||||||||||| | |||  |||| ||    
 CCCUU  UUCUC   UGUACU CACUAUAAC AAGCCGAGUGUAG G AGG  UUAG UU   C
A     AC     --A      -         C             U U   -U    G  GCC

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

zma-miR171k-5p      --UGGUAUUGUUUCGGCUCAUGU
zma-miR171h-5p      --UGGUAUUGUUUCGGCUCAUGU
vvi-miR479          UGUGGUAUUGGUUCGGCUCAUC-
csi-miR171b-5p      UGUGAUAUUGGUUCGGCUCAUC-
ppe-miR171d-5p      UGUGAUAUUGGUUCGGUUCAUA-
ptc-miR171l-5p      UGUGAUAUUGGUCCGGCUCAUC-
sbi-miR171f         -AUGAGCCGAACCAAUAUCACU-
lus-miR171h         -AUGAGCCGAACCAAUAUCACU-
vvi-miR171g         -UUGAGCCGAACCAAUAUCACC-
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