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

zma-miR166j-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GGUUUGUUUGUCUGGUUCAAGG

miRBase

Precursor miRNA Sequence(5'-3')

CAAGUUGAAGAUUAGGUUAAGGGGUUUGUUUGUCUGGUUCAAGGUCGCCACACAGCAGGGAAAACCCAUUUCGCCUUGAAGCAUGCACCAUGAUGGGUGUACCUGUUGGUGAUCUCGGACCAGGCUUCAAUCCCUUUAACUAGCGUCUGCAUAU

miRBase

Precursor miRNA Structure(5'-3') 

CAAGU  A    -UA          U   UUU         A         CACA     GAAA       ---UC  CU    
     UG AGAU   GGUUAAGGGG UUG   GUCUGGUUC AGGUCGCCA    GCAGG    ACCCAUU     GC  UGA 
     || ||||   |||||||||| |||   ||||||||| |||||||||    |||||    |||||||     ||  || A
     AC UCUG   UCAAUUUCCC AAC   CGGACCAGG UCUAGUGGU    UGUCC    UGGGUAG     CG  ACA 
--UAU  G    CGA          U   -UU         C         ----     -AUG       UACCA  -U

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

zma-miR166d-5p      GGAAUGUU-GUCUGGUUCAAGG
bdi-miR166c-5p      GGAAUGUU-GUCUGGUUCAAGG
zma-miR166b-5p      GGAAUGUU-GUCUGGUUCAAGG
osa-miR166e-5p      GGAAUGUU-GUCUGGUUCAAGG
osa-miR166a-5p      GGAAUGUU-GUCUGGUUCAAGG
csi-miR166d-5p      ---CUGUU-GUCUGGUUCAAGG
osa-miR166l-5p      GGAUUGUU-GUCUGGUUCAAGG
zma-miR166j-5p      GGUUUGUUUGUCUGGUUCAAGG
osa-miR166k-5p      GGUUUGUU-GUCUGGCUCGAGG
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