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

sbi-miR169d-3p

Organism

Sorghum bicolor

Species

Mature miRNA Sequence(5'-3')

GGGCGGUCACCUUGGCUAGC

miRBase

Precursor miRNA Sequence(5'-3')

GAAGAAGAGGGGCCUUGCAUGGUGGCGAGAGCCUGCCUUUGGUAGCCAAGGAUGACUUGCCUACAUGGCAUUGCGAGUUCCGGUUGCAUGGCCAGUUCAGCUGAGUUUGUGGGCGGUCACCUUGGCUAGCCUGAGUGGCUCUUGCCUGUCAUGGAAGGCCUCUUCUUCUGUC

miRBase

Precursor miRNA Structure(5'-3') 

-GA        -      G     -U          UGC   U   -        A     U       -------------    AU     GU 
   AGAAGAGG GGCCUU CAUGG  GGCGAGAGCC   CUU GGU AGCCAAGG UGACU GCCUACA             UGGC  UGCGA  U
   |||||||| |||||| |||||  ||||||||||   ||| ||| |||||||| ||||| |||||||             ||||  |||||  C
   UCUUCUUC CCGGAA GUACU  CCGUUCUCGG   GAG CCG UCGGUUCC ACUGG CGGGUGU             ACCG  ACGUU  G
CUG        U      G     GU          --U   U   A        -     -       UUGAGUCGACUUG    GU     GG

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

tae-miR169          GGGCAAGUCACCCUGGGCUACC
sit-miRN3032        GGGCAAAUCAUCC-GGGCUAAC
bdi-miR169k-3p      GGGCAAGUCAGCC-UGGCUACC
osa-miR169r-3p      UGGCAAGUC-UCCUCGGCUACC
bdi-miR169h-3p      --GGCAGUCACCU-UGGCUAGC
sbi-miR169d-3p      -GGGCGGUCACCU-UGGCUAGC
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