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

bdi-miR166c-5p

Organism

Brachypodium distachyon

Species

Mature miRNA Sequence(5'-3')

GGAAUGUUGUCUGGUUCAAGG

miRBase

Precursor miRNA Sequence(5'-3')

UGAAGAUGUGAAGCUAUUUUGCUUCUGGGUGGAAUGUUGUCUGGUUCAAGGUCUUGCCAUGUGAUUUGAGGAUGAACGGUUUGUGCAUGCAUAACUUUCAUUUCUCUUGUUUGCGGGAUCUCGGACCAGGCUUCAUUCCCCUCAGAGAUAGCUUCAAACUCGAGAUCUAGCC

miRBase

Precursor miRNA Structure(5'-3') 

--------UGAAGAUG          UUGCU      U      UU         A         CAUGU   UU     -    C    -   G 
                UGAAGCUAUU     UCUGGG GGAAUG  GUCUGGUUC AGGUCUUGC     GAU  GAGGA UGAA GGUU UGU C
                ||||||||||     |||||| ||||||  ||||||||| |||||||||     |||  ||||| |||| |||| |||  
                ACUUCGAUAG     AGACUC CCUUAC  CGGACCAGG UCUAGGGCG     UUG  CUCUU ACUU UCAA ACG G
CCGAUCUAGAGCUCAA          -----      C      UU         C         ----U   UU     U    -    U   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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