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-miR437l

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Sequence(5'-3')

GUCAAACUUUGUUAACAUUGACCAAAUUUAUAGAAAAAUGCACCAACAGACAACACCAAAUUAGUUUAAUUAAAUUUUCCAUACAAUAAGCUUUGAUAGAGCAAUUUUUUGAGAAGUAGAUGUUAAUAUAUUUUUCUAAAAACUUGGCCAAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Structure(5'-3') 

--          G     A   A    A   A          CACC    GACAACA -    --UUA    A      -   UCCA 
  GUCAAACUUU UUAAC UUG CCAA UUU UAGAAAAAUG    AACA       C CAAA     GUUU AUUAAA UUU    U
  |||||||||| ||||| ||| |||| ||| ||||||||||    ||||       | ||||     |||| |||||| |||     
  CAGUUUGAAG GAUUG AAC GGUU AAA AUCUUUUUAU    UUGU       G GUUU     CGAG UAGUUU GAA    A
UU          A     A   C    C   A          AUAA    AGAUGAA A    UUUAA    A      C   UAAC

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