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

gra-miR399

Organism

Gossypium raimondii

Species

Mature miRNA Sequence(5'-3')

GGGCACCUCUCACUUAGGCAGG

miRBase

Precursor miRNA Sequence(5'-3')

ACCAGUCUUAGGGCACCUCUCACUUAGGCAGGUAAUGGUGCAUAUUAUGGCAUUUGUUCCCAUGACUUGCCAAAGGAGAGUUGCCCUGUGACUGCU

miRBase

Precursor miRNA Structure(5'-3') 

AC     U       C     A   A       A    -U   UAUUA 
  CAGUC UAGGGCA CUCUC CUU GGCAGGU AUGG  GCA     U
  ||||| ||||||| ||||| ||| ||||||| ||||  |||      
  GUCAG GUCCCGU GAGAG GAA CCGUUCA UACC  UGU     C
UC     U       U     -   A       G    CU   UUACG

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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