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

mdm-miR319c-3p

Organism

Malus domestica

Species

Mature miRNA Sequence(5'-3')

AUCCAACGAAGCAGGAGCUGA

miRBase

Precursor miRNA Sequence(5'-3')

AGGAGCUCUUCUUCAGUCCAGUCCGGGGCRGUUUAAGGGCUGACACUCAGCUGCUGACUCGUUGGUUCAAGAACUCAUCGUACAAAUGCUAAAAGAAGUGGUGUGUUUCUGAUCCAACGAAGCAGGAGCUGAGAGGUUGGUUAUUGCAGUCGCGUCUUGGACUGAAGGGAGCUCCU

miRBase

Precursor miRNA Structure(5'-3') 

         U           UC  G   R  UUAAG       -A       G   AC       U   A    U    GUACAAAU   AA 
AGGAGCUCU CUUCAGUCCAG  CG GGC GU     GGCUGAC  CUCAGCU CUG  UCGUUGG UCA GAAC CAUC        GCU  A
||||||||| |||||||||||  || ||| ||     |||||||  ||||||| |||  ||||||| ||| |||| ||||        |||   
UCCUCGAGG GAAGUCAGGUU  GC CUG CG     UUGGUUG  GAGUCGA GAC  AGCAACC AGU UUUG GUGG        UGA  A
         -           CU  G   A  --UUA       GA       G   GA       U   C    U    --------   AG

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

csi-miR156j-3p       AUCCAACGAAGCAGGAGCUGC
mdm-miR319c-3p       AUCCAACGAAGCAGGAGCUGA
mtr-miR4414a-3p      AUCCAACGAUGCGGGAGCUGC
gma-miR4414a-3p      -UCCAACGAUGCGGGAGCUGC
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