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-miR437f

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Sequence(5'-3')

AGUCAAACUUCUCUAACUUUGAAAAAAGUCUGUAGAAAAAUAUAUUAACAUCUACAAUACCAAAUAAAUGCACUAUCAAGACAUAUUUCAUGUUGGAUUUAAUGAAACUAAUUUGUUGUUGAUCUUGGUGCACUUUUCUAUAAACUUGGUCAAAGUUAGAGAAGUUUGACUUAG

miRBase

Precursor miRNA Structure(5'-3') 

---                      AAA    C         AUA      C   U      CCAAAUAAAUGCACU   AA     A 
   AGUCAAACUUCUCUAACUUUGA   AAGU UGUAGAAAA   UAUUAA AUC ACAAUA               AUC  GACAU U
   ||||||||||||||||||||||   |||| |||||||||   |||||| ||| ||||||               |||  ||||| U
   UCAGUUUGAAGAGAUUGAAACU   UUCA AUAUCUUUU   GUGGUU UAG UGUUGU               UAG  UUGUA A
GAU                      -GG    A         CAC      C   U      UUAAUCAAAGUAAUU   -G     C

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