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

ppe-miR171h

Organism

Prunus persica

Species

Mature miRNA Sequence(5'-3')

UUGAGCCGCGUCAAUAUCUCC

miRBase

Precursor miRNA Sequence(5'-3')

UGUGAAUAUAUACAUAAUGAAGGUAUUGGCGCGCCUCAAUUUGAAGGCAUGGUUAAUAUAUGGAGACCUUAGCCAUGUGAUUCUGAUUGAGCCGCGUCAAUAUCUCCUUUUGCAUCUCUCUCCAUGU

miRBase

Precursor miRNA Structure(5'-3') 

--UGUGAAUAUAUACAUAAUGA             C       U   -G          UAUAU 
                      AGGUAUUGGCGCG CUCAAUU GAA  GCAUGGUUAA     G
                      ||||||||||||| ||||||| |||  ||||||||||      
                      UCUAUAACUGCGC GAGUUAG CUU  UGUACCGAUU     G
UGUACCUCUCUCUACGUUUUCC             C       U   AG          CCAGA

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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