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

osa-miR2275a

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUUGGUUUCCUCCAAUAUCUCA

miRBase

Precursor miRNA Sequence(5'-3')

AGCUUAGCUAGGCAUCACAAACCAUAAUCUUUGGCAGUUGAAUUUGAGGUUUGGAUGGGACCAAAUCUUACUGCAGACUUGCAGAUUAACGCAAGAUUUGGUUUCCUCCAAUAUCUCAUGUUCAGUUGUCAGACAGUGAAUAAUGGUGCAAUUAGUGAGCU

miRBase

Precursor miRNA Structure(5'-3') 

      G    --      CAAAC   AAUC              U      -     U             -------A     G 
AGCUUA CUAG  GCAUCA     CAU    UUUGGCAGUUGAAU UGAGGU UUGGA GGGACCAAAUCUU        CUGCA A
|||||| ||||  ||||||     |||    |||||||||||||| |||||| ||||| |||||||||||||        |||||  
UCGAGU GAUU  CGUGGU     GUG    AGACUGUUGACUUG ACUCUA AACCU CUUUGGUUUAGAA        GACGU U
      -    AA      AAUAA   --AC              U      U     C             CGCAAUUA     U

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

osa-miR2275b         UUUGGUUUCCUCCAAUAUCUCA
bdi-miR2275c         UUUGGUUUCCUCCAAUAUCUCA
osa-miR2275a         UUUGGUUUCCUCCAAUAUCUCA
bdi-miR2275a         UUUGGUUUCCUCCAAUGUCUCA
zma-miR2275a-3p      UUUGUUUUCCUCCAAUAUCUCA
zma-miR2275d-3p      UUUGUUUUCCUCUAAUAUCUCA
csi-miR2275a-3p      UUUAGUUUCCUCCAAUAUCUUA
csi-miR2275b-3p      UUUAGUUUCCUCCAAUAUCUUA
mes-miR2275          UUUGGUUUCCUCCAAUAUCUUA
tae-miR2275-3p       UUUGGUUUCCUCCAAUAUCUCG
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