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

smo-miR319

Organism

Selaginella moellendorffii

Species

Mature miRNA Sequence(5'-3')

UGCUGCCGACUCAUGCAUCC

miRBase

Precursor miRNA Sequence(5'-3')

UUGUUCGCGGGAGCUUCCUUUAGUUCAACUCAGGUGGAGCUGGAGAUGGUCCUGCUGCCGACUCAUGCAUCCGCGUACCUUGGAAAGUUACAAUGCCAGUUUCAGAAAGAGAGCUUCUUUUGUCCAGUGGUAGACGCUUGCAUGAUGCGGGAGCUGGUUCUCUCUCGAGCUUUGAUCGACCUGCCUUGGACUGAAGGGAGCUCCCUUGUUCCCAC

miRBase

Precursor miRNA Structure(5'-3') 

--UU UU  C                    CU     G  -----   G    U  -U  U   G   AC       UC  CG    -     AAGUUA   UGCC     CAG 
    G  CG GGGAGCUUCCUUUAGUUCAA  CAGGU GA     GCU GAGA GG  CC GCU CCG  UCAUGCA  CG  UACC UUGGA      CAA    AGUUU   A
    |  || ||||||||||||||||||||  ||||| ||     ||| |||| ||  || ||| |||  |||||||  ||  |||| |||||      |||    |||||    
    C  GU CCCUCGAGGGAAGUCAGGUU  GUCCA CU     CGA CUCU UC  GG CGA GGC  AGUACGU  GC  AUGG GACCU      GUU    UCGAG   G
CACC UU  U                    CC     G  AGUUU   G    C  UU  U   G   GU       UC  AG    U     ------   UUCU     AGA

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

csi-miR159b-5p      -AGCUGCCGACUCAUUCAUUCA
osa-miR319a-5p      -AGCUGCCGAAUCAUCCAUUCA
ppe-miR319b         UAGCUGCCGAGUCAUUCAUCCA
smo-miR319          -UGCUGCCGACUCAUGCAUCC-
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