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

mes-miR171a

Organism

Manihot esculenta

Species

Mature miRNA Sequence(5'-3')

UUGAGCCGCGUCAAUAUCUCC

miRBase

Precursor miRNA Sequence(5'-3')

GGAGAGAGUGGUGCAUAGGUGAAGAUAUUGGCGUGCCUCAAUCUAAUUACAUGGUUAAAUGAUAUGUUUUAGCCAAGUACUUUGGAUUGAGCCGCGUCAAUAUCUCCUUCAAUUAAUUUCACCUCUCUCUCU

miRBase

Precursor miRNA Structure(5'-3') 

        U    --CA   G   ---             C          -U   A        UGA 
GGAGAGAG GGUG    UAG UGA   AGAUAUUGGCGUG CUCAAUCUAA  UAC UGGUUAAA   U
|||||||| ||||    ||| |||   ||||||||||||| ||||||||||  ||| ||||||||    
UCUCUCUC CCAC    AUU ACU   UCUAUAACUGCGC GAGUUAGGUU  AUG ACCGAUUU   G
        U    UUUA   A   UCC             C          UC   A        UGU

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

csi-miR171e-3p      UUGAGCCGCGUCAAUAUCUCC
csi-miR171g-3p      UUGAGCCGCGUCAAUAUCUCC
fve-miR171h         UUGAGCCGCGUCAAUAUCUCC
mdm-miR171p         UUGAGCCGCGUCAAUAUCUCC
mdm-miR171b         UUGAGCCGCGUCAAUAUCUCC
mdm-miR171a         UUGAGCCGCGUCAAUAUCUCC
ppe-miR171h         UUGAGCCGCGUCAAUAUCUCC
mes-miR171a         UUGAGCCGCGUCAAUAUCUCC
gma-miR171t         UUGAGCCGCGUCAAUAUCUCA
gma-miR171n         UUGAGCCGCGUCAAUAUCUUA
gma-miR171p         UUGAGCCGCGUCAAUAUCUUA
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