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

fve-miR168-3p

Organism

Fragaria vesca

Species

Mature miRNA Sequence(5'-3')

CCCGCCUUGCAUCAACUGAAU

miRBase

Precursor miRNA Sequence(5'-3')

AGUAGUUACUGGCGGGUCUCUAAUUCGCUUGGUGCAGGUCGGGAACUGCUUCGGUUUUAGAGAGAGAGCCAGAUGGCUGCGGUUCCAGCGGAGCGGGUCCCGCCUUGCAUCAACUGAAUCGGAGACCGCGGUGAAAUCU

miRBase

Precursor miRNA Structure(5'-3') 

AGUAG      G   G     A     C          U     A        G UUUA   AGAG    A 
     UUACUG CGG UCUCU AUUCG UUGGUGCAGG CGGGA CUGCUUCG U    GAG    AGCC G
     |||||| ||| ||||| ||||| |||||||||| ||||| |||||||| |    |||    ||||  
     AGUGGC GCC AGAGG UAAGU AACUACGUUC GCCCU GGCGAGGC A    CUU    UCGG G
UCUAA      -   -     C     C          C     G        G ---C   GGCG    U

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

zma-miR168a-3p      ---CCCGCCUUGCACCAAGUGAA-
bdi-miR168-3p       ---CCCGCCUUGCACCAAGUGAAU
hvu-miR168-3p       GAUCCCGCCUUGCACCAAGUGAAU
osa-miR168a-3p      GAUCCCGCCUUGCACCAAGUGAAU
zma-miR168b-3p      ---CCCGCCUUGCAUCAAGUGAA-
csi-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168a-3p      ---CCUGCCUUGCAUCAACUGAAU
fve-miR168-3p       ---CCCGCCUUGCAUCAACUGAAU
sly-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
mtr-miR168c-3p      ---CCCGCCUUGCAUCAACUGAAU
aly-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168b-3p      ---CCCGCCUUGCAUCAACUGAAU
ptc-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
ath-miR168a-3p      ---CCCGCCUUGCAUCAACUGAAU
esa-miRN1029        --UCCCGACU-GCAUCAACUGAAU
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