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

aly-miR169g-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GCAAGUUGACCUUGGCUCUGU

miRBase

Precursor miRNA Sequence(5'-3')

AUGAUGAUGAUGAGUCUCUAGUUGUAUCAGAGGGUCUUGCAUGGAAGAGUAGAGAAUGAGGUUGAGCCAAGGAUGACUUGCCGGGUUUUUUACCAAUGAAUCUUAACUGAUUUUGGUGUCCGGCAAGUUGACCUUGGCUCUGUUUCCUUCUCUUCUUUUCGAUGUCAGACUCCGCGAUAUAUAUCUAUUUCAUCAUCGUCAU

miRBase

Precursor miRNA Structure(5'-3') 

              UCUCUAGU      -A A      U    G      U      U    UU         AU           UUUUU     AU     UU 
AUGAUGAUGAUGAG        UGUAUC  G GGGUCU GCAU GAAGAG AGAGAA GAGG  GAGCCAAGG  GACUUGCCGGG     UACCA  GAAUC  A
||||||||||||||        ||||||  | |||||| |||| |||||| |||||| ||||  |||||||||  |||||||||||     |||||  |||||   
UACUGCUACUACUU        AUAUAG  C CUCAGA UGUA CUUUUC UCUCUU CUUU  CUCGGUUCC  UUGAACGGCCU     GUGGU  UUUAG  U
              -UAUCUAU      CG -      C    G      U      C    GU         AG           -----     --     UC

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

aly-miR169e-3p      GCAAGUUGACCUUGGCUCUGU
aly-miR169g-3p      GCAAGUUGACCUUGGCUCUGU
aly-miR169d-3p      GCAAGUUGACCUUGGCUCUGU
ath-miR169f-3p      GCAAGUUGACCUUGGCUCUGC
aly-miR169f-3p      GCAAGUUGACCUUGGCUCUGC
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