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

zma-miR319c-5p

Organism

Zea mays

Species

Mature miRNA Sequence(5'-3')

GAGCUCUCUUCAGUCCACUC

miRBase

Precursor miRNA Sequence(5'-3')

GGUUUAUGGCUUCUGUGGAAGAGAGCUCUCUUCAGUCCACUCUAAAAUGGCUGUAGGGUUUCAUUAGCUGCCGACUCAUCCAUUCACCUGCCAAGAACCAUGGGCAAGCGGUAGGUCUGGUCUUGGUAGCCGAGUGGGUGGCGCGGGAGCUAAAAUCAAACUCUACGCUGUUUACGGUUGGACUGAAGGGUGCUCCCUUCAAUUUGCCCAAACACU

miRBase

Precursor miRNA Structure(5'-3') 

--G    AU   UUCU  G    A    U            C  UA       U         --CA      G   AC          AC         A   U  G AAG 
   GUUU  GGC    GU GAAG GAGC CUCUUCAGUCCA UC  AAAUGGC GUAGGGUUU    UUAGCU CCG  UCAUCCAUUC  CUGCCAAGA CCA GG C   C
   ||||  |||    || |||| |||| |||||||||||| ||  ||||||| |||||||||    |||||| |||  ||||||||||  ||||||||| ||| || |    
   CAAA  CCG    UA CUUC CUCG GGGAAGUCAGGU GG  UUUGUCG CAUCUCAAA    AAUCGA GGC  GGUGGGUGAG  GAUGGUUCU GGU CU G   U
UCA    -C   --UU  A    C    U            U  CA       -         CUAA      G   GC          CC         -   -  G AUG

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

mdm-miR319b-5p        -GAGCUUU-CUUCAGUCCACUC-
mtr-miR319b-5p        -GAGCUUU-CUUUAGUCCACUCA
mdm-miR319e           -GAGCUUU-CUUCAGUCCACUC-
mdm-miR319c-5p        -GAGCUCUUCUUCAGUCCAGUCC
mdm-miR319h           -GAGCUCUUCUUCAGUCCAGUCC
bdi-miR319b-5p        AGAGCUCU-CUUCAGUCCACUC-
mtr-miR319d-5p        AGAGCUCU-CUUCAGUCCACUC-
zma-miR319a-5p        -GAGCUCU-CUUCAGUCCACUC-
zma-miR319c-5p        -GAGCUCU-CUUCAGUCCACUC-
mdm-miR319g           -GAGCUUU-CUUCAGUCCACUC-
mdm-miR319f           -GAGCUUU-CUUCAGUCCACUC-
mtr-miR319a-5p        AGAGCUUC-CUUCAGUCCACUC-
aly-miR319b-5p        AGAGCUUU-CUUCGGUCCACUC-
ppt-miR319d-5p.1      -GAGCUUU-CUUCGGUCCAAUA-
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