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-miR156a-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

UGCUCGCUCCUCUUCUGUCAGC

miRBase

Precursor miRNA Sequence(5'-3')

CGAGAGAGCUACUGACAGAAGAGAGUGAGCACACGCAGGUAAUUGUAUUAGAAAAUAUCUUUGCAGGUGCGUGCUCGCUCCUCUUCUGUCAGCGUCAUUUUUG

miRBase

Precursor miRNA Structure(5'-3') 

      A CUA            -         A   AG    UU     A 
CGAGAG G   CUGACAGAAGAG AGUGAGCAC CGC  GUAA  GUAUU G
|||||| |   |||||||||||| ||||||||| |||  ||||  |||||  
GUUUUU C   GACUGUCUUCUC UCGCUCGUG GUG  CGUU  UAUAA A
      A UGC            C         C   GA    UC     A

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

osa-miR156j-3p      -GCUCGCUCCUCUUUCUGUCAGC
csi-miR156a-3p      UGCUCGCUCCUCUU-CUGUCAGC
zma-miR156k-3p      -GCUCGCUUCUCUUUCUGUCAGC
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