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

mtr-miR319b-5p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GAGCUUUCUUUAGUCCACUCA

miRBase

Precursor miRNA Sequence(5'-3')

UAAGAGAGCUUUCUUUAGUCCACUCAUGGGUGACAAUAAGAUUUCAAUUAGCUGCUGACUCAUUCAUCCAAAUGUUGAGUAAAAUAUAUAGAAACAUAUACUCAUCAAAUGAGUGAAUGAUGCGGGAGACAAAUUGAAUCUUAAGUUUCCUAUACUUGGACUGAAGGGAGCUCCCUUUUC

miRBase

Precursor miRNA Structure(5'-3') 

--U   A                 CUC     U   AA       U     A -  G   AC        C  AA  U      AAAUAUA 
   AAG GAGCUUUCUUUAGUCCA   AUGGG GAC  UAAGAUU CAAUU G CU CUG  UCAUUCAU CA  UG UGAGUA       U
   ||| |||||||||||||||||   ||||| |||  ||||||| ||||| | || |||  |||||||| ||  || ||||||       A
   UUC CUCGAGGGAAGUCAGGU   UAUCC UUG  AUUCUAA GUUAA C GA GGC  AGUAAGUG GU  AC ACUCAU       A
CUU   C                 UCA     U   -A       -     A A  G   GU        A  AA  U      AUACAAA

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

mdm-miR319b-5p        -GAGCUUU-CUUCAGUCCACUC-
mtr-miR319b-5p        -GAGCUUU-CUUUAGUCCACUCA
mdm-miR319e           -GAGCUUU-CUUCAGUCCACUC-
mdm-miR319c-5p        -GAGCUCUUCUUCAGUCCAGUCC
mdm-miR319h           -GAGCUCUUCUUCAGUCCAGUCC
bdi-miR319b-5p        AGAGCUCU-CUUCAGUCCACUC-
mtr-miR319d-5p        AGAGCUCU-CUUCAGUCCACUC-
zma-miR319a-5p        -GAGCUCU-CUUCAGUCCACUC-
zma-miR319c-5p        -GAGCUCU-CUUCAGUCCACUC-
mdm-miR319g           -GAGCUUU-CUUCAGUCCACUC-
mdm-miR319f           -GAGCUUU-CUUCAGUCCACUC-
mtr-miR319a-5p        AGAGCUUC-CUUCAGUCCACUC-
aly-miR319b-5p        AGAGCUUU-CUUCGGUCCACUC-
ppt-miR319d-5p.1      -GAGCUUU-CUUCGGUCCAAUA-
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