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

aly-miR166a-5p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

GGAAUGUUGUCUGGCUCGAGG

miRBase

Precursor miRNA Sequence(5'-3')

GGGGUUUUCUCUUUUGAGGGGAAUGUUGUCUGGCUCGAGGACUCUGGCUCGCUCUAUUCAUGUUGGAUCUUUUUCGAUCUAAUAAUCGAAUUGAACCUCCAGAUUUCAGAUCUGACUAGGGUUUUAGCGUCGUCGGACCAGGCUUCAUUCCCCCCAAUUGUUGCUCC

miRBase

Precursor miRNA Structure(5'-3') 

     UUUCU UU   A        UU      C    G   U    CUC      UUCAUGUUGGAUCUUUUUCGAUCUAAUAA 
GGGGU     C  UUG GGGGAAUG  GUCUGG UCGA GAC CUGG   GCUCUA                             U
|||||     |  ||| ||||||||  |||||| |||| ||| ||||   ||||||                              
CCUCG     G  AAC CCCCUUAC  CGGACC GGCU CUG GAUU   UGGGAU                             A
     ---UU UU   C        UU      A    G   C    --U      CAGUCUAGACUUUAGACCUCCAAGUUAAG

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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