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

zma-miR160a-3p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GCGUGCAAGGGGCCAAGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

UUGUGUGCGUGCCUGGCUCCCUGUAUGCCACACAUGUAGCGCCCAACCCAGAUGYUAAGGUUGCCUGCUGUGGGUGGCGUGCAAGGGGCCAAGCAUGCAUCCAU

miRBase

Precursor miRNA Structure(5'-3') 

U  U        C       C          A   GU    CC     CAGA 
 UG GUGCGUGC UGGCUCC UGUAUGCCAC CAU  AGCG  CAACC    U
 || |||||||| ||||||| |||||||||| |||  ||||  |||||     
 AC UACGUACG ACCGGGG ACGUGCGGUG GUG  UCGU  GUUGG    U
U  C        A       A          G   --    CC     AAUY

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

osa-miR160e-3p      GCGUGCGAGGUGCCAAGCAUG
zma-miR160f-3p      GCGUGCGAGGUGCCAGGCAUG
bdi-miR160a-3p      GCGUGCGAGGAGCCAAGCAUG
zma-miR160d-3p      GCGUGCGUGGAGCCAAGCAUG
csi-miR160c-3p      GCGUGCGAGGAGCCAUGCAUG
zma-miR160a-3p      GCGUGCAAGGGGCCAAGCAUG
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