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

csi-miR166f-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GGACUGUUGUCUGGCUCGAUG

miRBase

Precursor miRNA Sequence(5'-3')

AUGGAUGGGGAAAAAUGAUUGUUUCUGAGGGGACUGUUGUCUGGCUCGAUGCAUUAAUAAUAAUUAUAAUUAUAUAAUUAUAAUUAUAAUGAAAAAAGGGUAUCGGACCAGGCUUCAUUCCCUUCAGAAUCAAAUUCAUUAUUUGAUCUUUUU

miRBase

Precursor miRNA Structure(5'-3') 

--AU    G   AAA     --   U           C  UU      C       AUUAAUAAUA            U 
    GGAU GGG   AAUGA  UUG UUCUGAGGGGA UG  GUCUGG UCGAUGC          AUUAUAAUUAUA A
    |||| |||   |||||  ||| ||||||||||| ||  |||||| |||||||          ||||||||||||  
    UCUA UUU   UUACU  AAC AAGACUUCCCU AC  CGGACC GGCUAUG          UAAUAUUAAUAU U
UUUU    G   --A     UA   U           U  UU      A       -GGAAAAAAG            U

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

zma-miR166n-5p      GGAUUGUUGUCUGGCUCGGUG
csi-miR166f-5p      GGACUGUUGUCUGGCUCGAUG
bdi-miR166h-5p      GGUUUGUUGUCUGGCUCGGGG
                    **  **************  *