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

stu-miR169f-3p

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

GCAAGCAUCCUUGGCGACU

miRBase

Precursor miRNA Sequence(5'-3')

UAGCCAAGGAUGACUUGCCUUUCAUCAAUGCCUUGUAAAAAGGAAAUUAAUUAAAAUCCUUUUUAUGGUAUUGGGAAAAUGAGUGGCAAGCAUCCUUGGCGACU

miRBase

Precursor miRNA Structure(5'-3') 

--UA          A      U     -----       UU          AAUUA 
    GCCAAGGAUG CUUGCC UUCAU     CAAUGCC  GUAAAAAGGA     A
    |||||||||| |||||| |||||     |||||||  ||||||||||      
    CGGUUCCUAC GAACGG GAGUA     GUUAUGG  UAUUUUUCCU     A
UCAG          -      U     AAAGG       --          AAAAU

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

sly-miR169e-3p      UGGCAAGCAUCUUUGGCGACU
stu-miR169f-3p      --GCAAGCAUCCUUGGCGACU
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