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

aly-miR399h-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGGCAAGAUCUCUAUUGGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

AUUACAGGGCAAGAUCUCUAUUGGCAGGAAACCAUUACUUGACCUUUGCAUCUCUUUAUGCAUUGCUUUGUAGUGAGUUCUUGCCAAAGGAGAUUUGCCCGGUAAU

miRBase

Precursor miRNA Structure(5'-3') 

     A     A       A          AC      UU  C UU     CU 
AUUAC GGGCA GAUCUCU UUGGCAGGAA  CAUUAC  GA C  UGCAU  C
||||| ||||| ||||||| ||||||||||  ||||||  || |  |||||   
UAAUG CCCGU UUAGAGG AACCGUUCUU  GUGAUG  UU G  ACGUA  U
     G     -       A          GA      -U  C UU     UU

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

aly-miR399h-5p      GGGCAAGAUCUCUAUUGGCAGG
csi-miR399a-5p      GGGCAACAUCUCCAUUGGCAGG
aly-miR399f-5p      GGGCAAGAUCACCAUUGGCAGA
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