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-miR2592bq-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

AAAUGCUUGAGUCAUGUUGUU

miRBase

Precursor miRNA Sequence(5'-3')

AAUUCAAACUUGCCAAACGACCAUGACUCAAGUAUUAAGCCCAGCGUUCAUAUUUUUCCUUUGAAAAGAUUAAAUUCUUGUUAUGCUGGUUUAGAUGAAGGUAUUAAGUGUCAAUGAAUGAACCUCAUUUCGUUGGCACUUGAAUACCAUCAUCUAAAGCAAGCCUAACAAAAAUUUAUUAUUUUCAAAGAAAAAACAUGAACGCGGGGCGAAAUGCUUGAGUCAUGUUGUUUGGCCAGUUUAAAUU

miRBase

Precursor miRNA Structure(5'-3') 

    C     U          C              AA    A        A     C         GAU      C      U   - G         A     -              -     
AAUU AAACU GCCAAACGAC AUGACUCAAGUAUU  GCCC GCGUUCAU UUUUU CUUUGAAAA   UAAAUU UUGUUA GCU G UUUAGAUGA GGUAU UAAGUGUCAAUGAA UGAA 
|||| ||||| |||||||||| ||||||||||||||  |||| |||||||| ||||| |||||||||   |||||| |||||| ||| | ||||||||| ||||| |||||||||||||| ||| C
UUAA UUUGA CGGUUUGUUG UACUGAGUUCGUAA  CGGG CGCAAGUA AAAAA GAAACUUUU   AUUUAA AACAAU CGA C AAAUCUACU CCAUA GUUCACGGUUGCUU ACUC 
    A     C          -              AG    G        C     A         AUU      A      C   A G         A     A              U

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
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