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

stu-miR7997b

Organism

Solanum tuberosum

Species

Mature miRNA Sequence(5'-3')

AUGCUGCUCGGACUCUUCAAA

miRBase

Precursor miRNA Sequence(5'-3')

AUGCUGCUCGGACUCUUCAAAAAUGUCAGUGGGUGCGUGCUGGAUUCUCCAAAGGAGUGUAUUUUUGGAGAAUUUGACAUGGGUAUGACAUCAAAAGUGAAGAGCCAGCACAACUUAG

miRBase

Precursor miRNA Structure(5'-3') 

-----A  C    C  A       ---AAA      GUGGG G    C              GAG 
      UG UGCU GG CUCUUCA      AUGUCA     U CGUG UGGAUUCUCCAAAG   U
      || |||| || |||||||      ||||||     | |||| ||||||||||||||    
      AC ACGA CC GAGAAGU      UACAGU     G GUAC GUUUAAGAGGUUUU   A
GAUUCA  -    -  -       GAAAAC      ---AU G    A              UAU

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

stu-miR5303g      -AUAUUUUUGAAGAGUCUGAGCAAC
stu-miR5303i      -AUAUUUUUGAAGAGUCUGAGCAAC
stu-miR5303j      AAUAUUUUUGAAGAGUCUGAGCAA-
stu-miR5303h      AACAUUUUUGAAGAGUCUGAGCAA-
sly-miR5303       ----UUUUUGAAGAGUUCGAGCAAC
stu-miR7997a      -AUGCUGCUCGGACUCUUCAAA---
stu-miR7997b      -AUGCUGCUCGGACUCUUCAAA---
stu-miR7997c      -AUAUUGCUCGGACUCUUCAAAAAU
                       *  *          *