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

sit-miRN3032

Organism

Setaria italica

Species

Mature miRNA Sequence(5'-3')

GGGCAAAUCAUCCGGGCUAAC

PmiREN

Precursor miRNA Sequence(5'-3')

AGGTAGGAGGCCATCTTTGATAGCCAAGGATGATTTGCCTGTAGCCACCTCTGAATGCTCCTGGTGCCATGGCAATCAGGAGCAGCAAGTGGCGGCCCTCCGGGCAAATCATCCGGGCTAACTGAGTGCCTCTTACGCTATC

PmiREN

Precursor miRNA Structure(5'-3') 

---  -         CAU   U A     AA              --UA   A  U  GAA          -  C 
   AG GUAGGAGGC   CUU G UAGCC  GGAUGAUUUGCCUG    GCC CC CU   UGCUCCUGGU GC A
   || |||||||||   ||| | |||||  ||||||||||||||    ||| || ||   |||||||||| ||  
   UC CAUUCUCCG   GAG C AUCGG  CCUACUAAACGGGC    CGG GG GA   ACGAGGACUA CG G
CUA  G         --U   U A     -G              CUCC   C  U  ACG          A  G

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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