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

bra-miR858b

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UUUCGUUGUCUGUUCGACCUU

PmiREN

Precursor miRNA Sequence(5'-3')

GTGGTGATCAAGAGTGGTTGGGTTCGATGCTAGGCTTGTCAAAGTGAGCAATCTTGTGTTCTCATCTTGGTTTCGTTGTCTGTTCGACCTTGGCCTCGATCTCTCATCGAA

PmiREN

Precursor miRNA Structure(5'-3') 

-G      UCA   --GU       U    U  U    -U  ---    A     C   C 
  UGGUGA   AGA    GGUUGGG UCGA GC AGGC  UG   UCAA GUGAG AAU U
  ||||||   |||    ||||||| |||| || ||||  ||   |||| ||||| ||| U
  GCUACU   UCU    CCGGUUC AGCU UG UCUG  GC   GGUU UACUC UUG G
AA      --C   AGCU       C    -  -    UU  UUU    C     -   U

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

bra-miR858b        UUUCGUUGUCUGUUCGACCUU-
ath-miR858a        UUUCGUUGUCUGUUCGACCUU-
aly-miR858-5p      UUUCGUUGUCUGUUCGACCUU-
ppe-miR858         -CUCGUUGUCUGUUCGACCUUG
csi-miR858-3p      -CUCGUUGUCUGUUCGACCUUG
ath-miR858b        -UUCGUUGUCUGUUCGACCUUG
zos-miR858         -UUCGUUGUCUGUUCGACCUUG
bra-miR858a        -UUCGUUGUCUGUUCGACCUUG
mdm-miR858         -UUCGUUGUCUGUUCGACCUGA
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