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-miR399h

Organism

Manihot esculenta

Species

Mature miRNA Sequence(5'-3')

GGGCACCUCUCGCUUGGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

AGCAGUUGUAGGGCACCUCUCGCUUGGCAGGCAAUGGCAGCAUGAGAAGGUGUUAGAAUUCGACCCUGUUGUCUUGCCAAAGGAGAGCUGCCCUGUGAUUGCUU

miRBase

Precursor miRNA Structure(5'-3') 

-               C     GC        -      ----------C     GA 
 AGCAGUUGUAGGGCA CUCUC  UUGGCAGG CAAUGG           AGCAU  G
 ||||||||||||||| |||||  |||||||| ||||||           |||||   
 UCGUUAGUGUCCCGU GAGAG  AACCGUUC GUUGUC           UUGUG  G
U               C     GA        U      CCAGCUUAAGA     GA

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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