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

aly-miR390b-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

CGCUAUCCAUCCUGAGUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

AGUAGAAAAAUAGCUAUAAAGCUCAGGAGGGAUAGCGCCAUGAAUCACCAAUACUGUAGGUUUUGUAUAUACAUGCAUGUAGAUCUGUUGGCGCUAUCCAUCCUGAGUUCCAUAGCUUCUUCUUGCU

miRBase

Precursor miRNA Structure(5'-3') 

    -   AAAU      AA         G           -UGA   ACCAA   -    G  UUU 
AGUA GAA    AGCUAU  AGCUCAGGA GGAUAGCGCCA    AUC     UAC UGUA GU   G
|||| |||    ||||||  ||||||||| |||||||||||    |||     ||| |||| ||   U
UCGU CUU    UCGAUA  UUGAGUCCU CCUAUCGCGGU    UAG     AUG ACGU CA   A
    U   --CU      CC         A           UGUC   -----   U    A  UAU

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

ptc-miR390d-3p      CGCUAUCCAUCCUGAGUUUUA
stu-miR390-3p       CGCUAUCCAUCUUGAGUUUUA
sly-miR390a-3p      CGCUAUCCAUCCUGAGUUUUA
ath-miR390a-3p      CGCUAUCCAUCCUGAGUUUCA
csi-miR390a-3p      CGCUAUCCAUCCUGAGUUUCA
sly-miR390b-3p      CGCUAUCCAUCCUGAGUUUCA
gma-miR390a-3p      CGCUAUCCAUCCUGAGUUUC-
gma-miR390c         CGCUAUCCAUCCUGAGUUUC-
mes-miR390          CGCUAUCCAUCCUGAGUUUC-
aly-miR390a-3p      CGCUAUCCAUCCUGAGUUUCA
ath-miR390b-3p      CGCUAUCCAUCCUGAGUUCC-
aly-miR390b-3p      CGCUAUCCAUCCUGAGUUCCA
zma-miR390a-3p      CGCUAUCUAUCCUGAGCUCCA
zma-miR390b-3p      CGCUAUCUAUCCUGAGCUCCA
bdi-miR390a-3p      CGCUAUCUAUCCUGAGCUCCA
osa-miR390-3p       CGCUAUCUAUCCUGAGCUCC-
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