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-miR2592bm-3p

Organism

Medicago truncatula

Species

Mature miRNA Sequence(5'-3')

GGAAAACAUGAAUGUCGGGUG

miRBase

Precursor miRNA Sequence(5'-3')

CUCAAGCAUUUCGCUCGGCAUUCAUGUUUUUCCUUUGAAAAGAUUAAAUUCUUGUUAGGUUGAUUUAGAUGAAUGUAUUAAGUGUCAAUGAAUGAACCUUAUUUGUUGGCACUUGAAUAUCAUCAUCUAAAACAAGCGUAGCAAAAAUUUAUUCUUUUCAAAGGAAAACAUGAAUGUCGGGUGAAAUGCUUGA

miRBase

Precursor miRNA Structure(5'-3') 

C                             U            U      C      G   - A         AU    -                   
 UCAAGCAUUUCGCUCGGCAUUCAUGUUUU CCUUUGAAAAGA UAAAUU UUGUUA GUU G UUUAGAUGA  GUAU UAAGUGUCAAUGAAUGAA 
 ||||||||||||||||||||||||||||| |||||||||||| |||||| |||||| ||| | |||||||||  |||| ||||||||||||||||| C
 AGUUCGUAAAGUGGGCUGUAAGUACAAAA GGAAACUUUUCU AUUUAA AACGAU CGA C AAAUCUACU  UAUA GUUCACGGUUGUUUAUUU 
-                             -            U      A      G   A A         AC    A

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

mtr-miR2592bm-3p      GGAAAACAU-GAAUGUCGGGUG--
mtr-miR2592bn-3p      GGAAAACAU-GAAUGUCGGGUG--
mdm-miR10996a         --ACACCAUCGCAUCUCAUGUUCC
mdm-miR10996b         --UCACCAUUGCAUCUCAUGUUCC
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