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

sbi-miR437o

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Sequence(5'-3')

AAGUCACUUUUAUAACUUUGCAAGGUUUUUAGAAAAAUGCACCAUCCUCUACAACAUCAAAUUAGUUUCAUUAAAUUCUCUAUGAAAUAUGUCUUGGUAGUGCAUUUAUGUGAACCUGUAGCUGUUAAUAUAUUUUUUAUAAAAACUUAGUCAAAGUUAGAGAAGUUUGACUUAG

miRBase

Precursor miRNA Structure(5'-3') 

--     --      A        - A         -        CACCAUCCU     ACAUCAAAUUA U     -     U U    G  AU 
  AAGUC  ACUUUU UAACUUUG C AGGUUUUUA GAAAAAUG         CUACA           G UUCAU UAAAU C CUAU AA  A
  |||||  |||||| |||||||| | ||||||||| ||||||||         |||||           | ||||| ||||| | |||| ||  U
  UUCAG  UGAAGA AUUGAAAC G UUCAAAAAU UUUUUUAU         GAUGU           C AAGUG AUUUA G GAUG UU  C
GA     UU      G        U A         A        AUAAUUGUC     ----------- C     U     C U    G  CU

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
                  ** *****************