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-miR437w

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Sequence(5'-3')

UAAAUCUCUCUAAUAUUUACCAAGUUUAUAGAAAAAUGCAUCAACAUUUCCAACAUCAAAUUAGUAUCAUUAAAUUCUCCGUGAAAUAUAUUCAUAGUGCAUUUACUUGAACUUGUAGAUUUUAAUAGUUUUUUUUUUCUAAAAACUUGGUGAAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Structure(5'-3') 

----     C        A            A        UGCAUC   -   UCCAAC   AAAUU   A   -U     U U C     A 
    UAAAU UCUCUAAU UUUACCAAGUUU UAGAAAAA      AAC AUU      AUC     AGU UCA  UAAAU C C GUGAA U
    ||||| |||||||| |||||||||||| ||||||||      ||| |||      |||     ||| |||  ||||| | | ||||| A
    GUUUG AGAGAUUG AAGUGGUUCAAA AUCUUUUU      UUG UAA      UAG     UCA AGU  AUUUA G G UACUU U
UUCA     A        A            A        ---UUU   A   ---UUU   -AUGU   -   UC     C U A     A

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