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-miR437

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

AAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Sequence(5'-3')

CCCUCUGUUUCAUAUUGUAUUGUGUUUUAGUUUUGUUGUAAGUCAAAAUUCUUUUACUUUGACCAAGUUUGUAGUAAAAUAAUUAACAUCUAAAAUACCAAAUAAAUACACUAUUGAGACAUAUUUCUUGGUUGAUUUUUCUAUAAACUUGGUCAAAGUUAGAGAAGUUUGACUUAGGACAAAACUAAACACCUUAUGAUAUGGAACAGAGGG

miRBase

Precursor miRNA Structure(5'-3') 

                   UU      U         G         A      U                   U     AAUUAACAUCUAAAAU     AU     -CA  A 
CCCUCUGUUUCAUAUUGUA  GUGUUU AGUUUUGUU UAAGUCAAA UUCUUU ACUUUGACCAAGUUUGUAG AAAAU                ACCAA  AAAUA   CU U
|||||||||||||||||||  |||||| ||||||||| ||||||||| |||||| ||||||||||||||||||| |||||                |||||  |||||   ||  
GGGAGACAAGGUAUAGUAU  CACAAA UCAAAACAG AUUCAGUUU AAGAGA UGAAACUGGUUCAAAUAUC UUUUA                UGGUU  UUUAU   GA A
                   UC      -         G         G      U                   U     --------------GU     -C     ACA  G

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

osa-miR437       AAAGUUAGAGAAGUUUGACUU
sbi-miR437a      AAAGUUAGAGAAGUUUGACUU
sbi-miR437b      AAAGUUAGAGAAGUUUGACUU
sbi-miR437c      AAAGUUAGAGAAGUUUGACUU
sbi-miR437d      AAAGUUAGAGAAGUUUGACUU
sbi-miR437e      AAAGUUAGAGAAGUUUGACUU
sbi-miR437f      AAAGUUAGAGAAGUUUGACUU
sbi-miR437g      AAAGUUAGAGAAGUUUGACUU
sbi-miR437i      AAAGUUAGAGAAGUUUGACUU
sbi-miR437j      AAAGUUAGAGAAGUUUGACUU
sbi-miR437k      AAAGUUAGAGAAGUUUGACUU
sbi-miR437l      AAAGUUAGAGAAGUUUGACUU
sbi-miR437m      AAAGUUAGAGAAGUUUGACUU
sbi-miR437n      AAAGUUAGAGAAGUUUGACUU
sbi-miR437o      AAAGUUAGAGAAGUUUGACUU
sbi-miR437p      AAAGUUAGAGAAGUUUGACUU
sbi-miR437q      AAAGUUAGAGAAGUUUGACUU
sbi-miR437r      AAAGUUAGAGAAGUUUGACUU
sbi-miR437s      AAAGUUAGAGAAGUUUGACUU
sbi-miR437t      AAAGUUAGAGAAGUUUGACUU
sbi-miR437u      AAAGUUAGAGAAGUUUGACUU
sbi-miR437v      AAAGUUAGAGAAGUUUGACUU
sbi-miR437w      AAAGUUAGAGAAGUUUGACUU
bdi-miR437       GAACUUAGAGAAGUUUGACUU
                  ** *****************