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-miR858-3p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

CUCGUUGUCUGUUCGACCUUG

miRBase

Precursor miRNA Sequence(5'-3')

GCUAUGCUUGUCAAGUGAGCAGUCUUUUGCGAGUUAACCUUUGCCUCGUUGUCUGUUCGACCUUGAACAUACAUAUG

miRBase

Precursor miRNA Structure(5'-3') 

GC    CU   -    --       UCUUUU     U     
  UAUG  UGU CAAG  UGAGCAG      GCGAG UAAC 
  ||||  ||| ||||  |||||||      ||||| ||| C
  AUAC  ACA GUUC  GCUUGUC      UGCUC GUUU 
GU    AU   A    CA       ---UGU     C

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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