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

ath-miR829-3p.1

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

AGCUCUGAUACCAAAUGAUGGAAU

miRBase

Precursor miRNA Sequence(5'-3')

ACGUCAAAAUUGAUUAACAAAAAGUCAAUGAAUCAUUCUACCAAUUGACUUGUACUUUGAAGCUUUGAUUUGAACCUGUCAAUUGGUAUCAAAGCUUCUAAAUCUUUGAAGCUCUGAUACCAAAUGAUGGAAUCAAAUUAAAGCUUCAAGGUAGUAGUCAUCUUGGCAGAGAAAAGAAAAAGCACUUCGAGUUUACCAUCUUGAU

miRBase

Precursor miRNA Structure(5'-3') 

ACGUCAAAAUUGAUUAACAAAAAGUCAAUGAAUCAU   A    -U     UG                     AC      A         A      UAA 
                                    UCU CCAA  UGACU  UACUUUGAAGCUUUGAUUUGA  CUGUCA UUGGUAUCA AGCUUC   A
                                    ||| ||||  |||||  |||||||||||||||||||||  |||||| ||||||||| ||||||   U
                                    AGA GGUU  ACUGA  AUGGAACUUCGAAAUUAAACU  GGUAGU AACCAUAGU UCGAAG   U
-UAGUUCUACCAUUUGAGCUUCACGAAAAAGAAAAG   C    CU     UG                     AA      A         C      UUU

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

vvi-miR845a          UAGCUCUGAUACCAAUU-GAUA----
vvi-miR845b          UAGCUCUGAUACCAAUU-GAUA----
bra-miR845           CGGCUCUGAUACCAAUU-GAUG----
esa-miR845           CGGCUCUGAUACCAAUU-GAUG----
ath-miR845a          CGGCUCUGAUACCAAUU-GAUG----
vvi-miR845c          AGGCUCUGAUACCAAUU-GAUG----
vvi-miR845d          UGGCUCUGAUACCAAUU-GAUG----
vvi-miR845e          UGGCUCUGAUACCAAUU-GAUG----
aly-miR845b-3p       UCGCUCUGAUACCAAAU-GAUG----
ath-miR845b          UCGCUCUGAUACCAAAUUGAUG----
ath-miR829-3p.1      -AGCUCUGAUACCAAAU-GAUGGAAU
bdi-miR845           -UGCUCUGAUACCAAUU-GUUGG---
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