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-miR2592s-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

AAAUGCUUGAGUCAUGUUGUU

miRBase

Precursor miRNA Sequence(5'-3')

AGAUAAAUUCAAACCUGUCAAACAACAGGACUCAAGCAUUUCGCUCGACGUUCAUGUUUUCCUUUGAAAAGAAUAAAUUUUUGUUAGGCUUGCUUUAGAUGAUGAUAUUCAAGUGACAACGAAAUGAGGUUCAUUCCUUGACACUUAAUACCUUCAUCUAAACCAGCCUAACAAAAAUUUAAUCUUUUCAAAGGAAAAACAUGAAUGCCGAGCGAAAUGCUUGAGUCAUGUUGUUUGGCAGGUUUGAAUUUAUC

miRBase

Precursor miRNA Structure(5'-3') 

A                          G                   A            -            A                 U C         U A    C     A   C   A     
 GAUAAAUUCAAACCUGUCAAACAACA GACUCAAGCAUUUCGCUCG CGUUCAUGUUUU CCUUUGAAAAGA UAAAUUUUUGUUAGGCU G UUUAGAUGA G UAUU AAGUG CAA GAA UGAG 
 |||||||||||||||||||||||||| ||||||||||||||||||| |||||||||||| |||||||||||| ||||||||||||||||| | ||||||||| | |||| ||||| ||| ||| ||| G
 CUAUUUAAGUUUGGACGGUUUGUUGU CUGAGUUCGUAAAGCGAGC GUAAGUACAAAA GGAAACUUUUCU AUUUAAAAACAAUCCGA C AAAUCUACU C AUAA UUCAC GUU CUU ACUC 
-                          A                   C            A            A                 C -         U C    -     A   C   -

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

mtr-miR2592s-3p       AAAUGCUUGAGUCAUGUUGUU---
mtr-miR2592bq-3p      AAAUGCUUGAGUCAUGUUGUU---
stu-miR8020           AAUUUCAUUGAGUAUGUUGUUGUU
                      ** * * *     ********