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

osa-miR444f

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UGCAGUUGUUGCCUCAAGCUU

miRBase

Precursor miRNA Sequence(5'-3')

AUGGUGGCACCAAGCAUGAGGUUACAACUGCAUUACUUGCAAGGGAAUCACAAGUCACAAGAAACACAUGUUAUUACAAUGGAUAAUCAAUGGGUCAUCAUACUAUGACUUUCUUGCAAGUUGUGCAGUUGUUGCCUCAAGCUUGCUGCCUCCG

miRBase

Precursor miRNA Structure(5'-3') 

AU  U    C     A      U          U            A   CA   CACAA  AA  CAU      AC 
  GG GGCA CAAGC UGAGGU ACAACUGCAU ACUUGCAAGGGA UCA  AGU     GA  CA   GUUAUU  A
  || |||| ||||| |||||| |||||||||| |||||||||||| |||  |||     ||  ||   ||||||   
  CC CCGU GUUCG ACUCCG UGUUGACGUG UGAACGUUCUUU AGU  UCA     CU  GU   UAAUAG  G
-G  U    C     A      U          U            C   -A   UACUA  GG  AAC      GU

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

bdi-miR444c           UGCAGUUGUUGUCUCAAGCUU
bdi-miR444d           UGCAGUUGUUGUCUCAAGCUU
zma-miR444b           UGCAGUUGUUGUCUCAAGCUU
zma-miR444a           UGCAGUUGUUGUCUCAAGCUU
osa-miR444c.2         UGCAGUUGUUGUCUCAAGCUU
osa-miR444b.2         UGCAGUUGUUGUCUCAAGCUU
osa-miR444f           UGCAGUUGUUGCCUCAAGCUU
osa-miR444a-3p.2      UGCAGUUGCUGCCUCAAGCUU
osa-miR444d.2         UGCAGUUGCUGCCUCAAGCUU
osa-miR444e           UGCAGUUGCUGCCUCAAGCUU
bdi-miR444b           UGCAGUUGCUGCCUCAAGCUU
hvu-miR444b           UGCAGUUGCUGUCUCAAGCUU
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