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

csi-miR399d-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GGGCACCUCUUACUUGGCAUG

miRBase

Precursor miRNA Sequence(5'-3')

AAAGCAGUUUUAGGGCACCUCUUACUUGGCAUGCAAUGGUGAUUUAUUGGUGCAAUAAUCAGCAUUAUAUUGGUUAAUUCGAUAUCAAUCCCACUGAUAUGCCAAAGGAGAGUUGCCCUGUGACUGCUUC

miRBase

Precursor miRNA Structure(5'-3') 

A        U       C     AC        -  A   U    UAUUGGUGCAAUAAUCAGCA 
 AAGCAGUU UAGGGCA CUCUU  UUGGCAUG CA UGG GAUU                    U
 |||||||| ||||||| |||||  |||||||| || ||| ||||                     
 UUCGUCAG GUCCCGU GAGAG  AACCGUAU GU ACC CUAA                    U
C        U       U     GA        A  C   -    CUAUAGCUUAAUUGGUUAUA

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

gra-miR399          GGGCACCUCUCACUUAGGCAGG
mes-miR399h         GGGCACCUCUCGCUU-GGCAGG
csi-miR399d-5p      GGGCACCUCUUACUU-GGCAUG
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