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-miR390a-3p

Organism

Arabidopsis lyrata

Species

Mature miRNA Sequence(5'-3')

CGCUAUCCAUCCUGAGUUUCA

miRBase

Precursor miRNA Sequence(5'-3')

CCAAAAAACAAGUAGAGAAGAAUCUGUAAAGCUCAGGAGGGAUAGCGCCAUGAUGAUCUUAUUUCAUAUCGAUUUUUUGGCGCUAUCCAUCCUGAGUUUCAUUGGCUCUUCUUACUACAAUGUAAAAGG

miRBase

Precursor miRNA Structure(5'-3') 

CCAAAAA   -A    --      A  U  A          G           UGAU    UUAUU 
       ACA  GUAG  AGAAGA UC GU AAGCUCAGGA GGAUAGCGCCA    GAUC     U
       |||  ||||  |||||| || || |||||||||| |||||||||||    ||||      
       UGU  CAUC  UCUUCU GG UA UUUGAGUCCU CCUAUCGCGGU    UUAG     U
-GGAAAA   AA    AU      C  U  C          A           -UUU    CUAUA

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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