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

vvi-miR2111-3p

Organism

Vitis vinifera

Species

Mature miRNA Sequence(5'-3')

GUCCUCUGGUUGCAGAUUACU

miRBase

Precursor miRNA Sequence(5'-3')

GCAAUAUUGGGUCAGGAUCGGGUAAUCUGCAUCCUGAGGUCUAGAUAAGUAUAUCUCCGUUGCAGCUAGUCCUCUGGUUGCAGAUUACUUCUUCCUCACUGCCAAUGC

miRBase

Precursor miRNA Structure(5'-3') 

GCAA      --  C    UC            U  U    U    AUAA   UAU 
    UAUUGG  GU AGGA  GGGUAAUCUGCA CC GAGG CUAG    GUA   C
    ||||||  || ||||  |||||||||||| || |||| ||||    |||   U
    GUAACC  CA UCCU  UUCAUUAGACGU GG CUCC GAUC    CGU   G
---C      GU  C    UC            U  U    U    --GA   UGC

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

mtr-miR2111m-3p      GUCCUCGGGAUACAGAUUACU
cru-miR2111          -UCCUCGGGAUACAGAUUACC
gma-miR2111a         GUCCUUGGGAUGCAGAUUACG
gma-miR2111d         GUCCUUGGGAUGCAGAUUACG
vvi-miR2111-3p       GUCCUCUGGUUGCAGAUUACU
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