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

bdi-miR444b

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

UGCAGUUGCUGCCUCAAGCUU

miRBase

Precursor miRNA Sequence(5'-3')

GAUUCGCAUGCGGCGGCACCAAGCAUGAGGCGACAACUGCAUUACUUGCUGGGAAGACGCAAGUAUGACAGCGAAACAUGCAUUACUUGCGGGAAAGGCGCAAAACGAAUAGAAGAUCAUCAUACUUGUGGCUUUCUUGCAAGUUGUGCAGUUGCUGCCUCAAGCUUGCUGCCUCCCUUUGCCAGAGC

miRBase

Precursor miRNA Structure(5'-3') 

-GAUUC   UGC  C    C     A       A         U      U      A           CAGCGAAACAUGCAUUACUUGCGG 
      GCA   GG GGCA CAAGC UGAGGCG CAACUGCAU ACUUGC GGGAAG CGCAAGUAUGA                        G
      |||   || |||| ||||| ||||||| ||||||||| |||||| |||||| |||||||||||                        A
      CGU   CC CCGU GUUCG ACUCCGU GUUGACGUG UGAACG UCUUUC GUGUUCAUACU                        G
CGAGAC   UUC  U    C     A       C         U      U      G           ACUAGAAGAUAAGCAAAACGCGGA

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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