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-miR166e-5p

Organism

Citrus sinensis

Species

Mature miRNA Sequence(5'-3')

GGAAUGUUGUCUGGCUCGAGG

miRBase

Precursor miRNA Sequence(5'-3')

GGGGAGCUUUUUGUUUUGAGGGGAAUGUUGUCUGGCUCGAGGACACUGCUUGUUGAUCCAUUAAUUUUACGUAUUCUCUCAUAGAUCUAGCAUCUGAAUGGUGGAUAACAAUAUACGGAUUCAGCUUAUUUGGCGUCGUCGGACCAGGCUUCAUUCCCCCCAAUAUAUUGCUUCCAU

miRBase

Precursor miRNA Structure(5'-3') 

-G      UUUU   U   A        UU      C    G   A  --GCUU     -   AUUAAUUUUAC    UCUCUCAUAG     G   C 
  GGGAGC    UGU UUG GGGGAAUG  GUCUGG UCGA GAC CU      GUUGA UCC           GUAU          AUCUA CAU U
  ||||||    ||| ||| ||||||||  |||||| |||| ||| ||      ||||| |||           ||||          ||||| |||  
  CCUUCG    AUA AAC CCCCUUAC  CGGACC GGCU CUG GG      CGACU AGG           CAUA          UAGGU GUA A
UA      --UU   U   C        UU      A    G   C  UUUAUU     U   -----------    ----UAACAA     G   A

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

ath-miR166e-5p              GGAAUGUUGUCUGGCACGAGG-
aly-miR166e-5p              GGAAUGUUGUCUGGCACGAGG-
ath-miR166a-5p              GGACUGUUGUCUGGCUCGAGG-
ath-miR166b-5p              GGACUGUUGUCUGGCUCGAGG-
aly-miR166b-5p              GGACUGUUGUCUGGCUCGAGG-
osa-miR166b-5p              GGAAUGUUGUCUGGCUCGGGG-
zma-miR166a-5p              GGAAUGUUGUCUGGCUCGGGG-
bdi-miR166b-5p              GGAAUGUUGUCUGGCUCGGGG-
zma-miR166k-5p              GGAUUGUUGUCUGGCUCGGGG-
osa-miR166d-5p              GGAAUGUUGUCUGGCUCGAGG-
gma-miR166a-5p              GGAAUGUUGUCUGGCUCGAGG-
csi-miR166e-5p              GGAAUGUUGUCUGGCUCGAGG-
aly-miR166c-5p              GGAAUGUUGUCUGGCUCGAGG-
bdi-miR166e-5p              GGAAUGUUGUCUGGCUCGAGG-
csi-miR166b-5p              GGAAUGUUGUUUGGCUCGAGGG
aly-miR166g-5p              GGAAUGUUGUUUGGCUCGAGG-
gma-miR166h-5p              GGAAUGUUGUUUGGCUCGAGG-
gma-miR166j-5p              GGAAUGUUGUUUGGCUCGAGG-
stu-miR166c-5p              GGAAUGUUGUUUGGCUCGAGG-
ath-miR165a-5p              GGAAUGUUGUCUGGAUCGAGG-
aly-miR165a-5p              -GAAUGUUGUCUGGAUCGAGG-
aly-miR165b-5p              -GAAUGUUGUUUGGAUCGAGG-
aly-miR166a-5p              GGAAUGUUGUCUGGCUCGAGG-
gma-miR166c-5p              GGAAUGUUGUCUGGCUCGAGG-
stu-miR166a-5p              GGAAUGUUGUCUGGCUCGAGG-
gma-miR166l                 GGAAUGUUGUCUGGCUCGAGG-
aly-miR166d-5p              GGAAUGUUGUCUGGCUCGAGG-
csi-miR166a-5p              GGAAUGUUGUCUGGCUCGAGG-
mtr-miR166g-5p              GGAAUGUUGUCUGGCUCGAGG-
zma-miR166c-5p              GGAAUGUUGUCUGGCUCGAGG-
osa-miR166h-5p              GGAAUGUUGGCUGGCUCGAGG-
zma-miR166m-5p              GGAAUGUUGGCUGGCUCGAGG-
mtr-miR166e-5p              GGAAUGUUGGCUGGCUCGAGG-
dca-miR166-b2.0r1-9086      GGAAUGUUGUCCGGCUCGAUG-
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