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

mtr-miR5556-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

UGAUGACGGAAGAAAUCCAAA

miRBase

Precursor miRNA Sequence(5'-3')

GUCAAGAUCAUUUGGAAUUCUUCCGCCAUCCAACGAACCUUAGAGAACAGCUCCACAAUAGUUGAGACUCCUUGACCUCCAAGGUUCAUUUGAUGACGGAAGAAAUCCAAAUGAUCUUGUU

miRBase

Precursor miRNA Structure(5'-3') 

GU              A        C    C  C       A   AA   -----   C  A 
  CAAGAUCAUUUGGA UUCUUCCG CAUC AA GAACCUU GAG  CAG     CUC AC A
  |||||||||||||| |||||||| |||| || ||||||| |||  |||     ||| ||  
  GUUCUAGUAAACCU AAGAAGGC GUAG UU CUUGGAA CUC  GUU     GAG UG G
UU              A        A    U  A       C   CA   CCUCA   U  A

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

osa-miR5340         UGAUGACGUGGAUGAAUUUCAAA
mtr-miR5556-3p      UGAUGACG--GAAGAAAUCCAAA
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