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-miR437p

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

AAAGUUAGAGAAGUUUGACUU

miRBase

Precursor miRNA Sequence(5'-3')

AUGUCAAACUUCUCUAACACUGACCGAGUUUGUAGGACAAAUAUAUACUAGCAUCUACAAUACCAAAUAAAUGCACUAUCAAGAGUCAAGACAAAUUUCAUGGUGGAUUUGAUGAAACUAAUUUGAUUUUGUAUGUGUUGGUCCAUUUUUUCAAUAAACUUGGUCAAAGUUAGAGAAGUUUGACUUAG

miRBase

Precursor miRNA Structure(5'-3') 

--AU                AC             A   C    AUAU        C     UAC     ----------    G      CAA    CAA 
    GUCAAACUUCUCUAAC  UGACCGAGUUUGU GGA AAAU    ACUAGCAU UACAA   CAAAU          AAAU CACUAU   GAGU   G
    ||||||||||||||||  ||||||||||||| ||| ||||    |||||||| |||||   |||||          |||| ||||||   ||||    
    CAGUUUGAAGAGAUUG  ACUGGUUCAAAUA CUU UUUA    UGGUUGUG AUGUU   GUUUA          UUUA GUGGUA   UUUA   A
GAUU                AA             A   U    --CC        U     UUA     AUCAAAGUAG    G      --C    AAC

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