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-miR2118h

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGCCUCUCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GGAAGAGGAAGAAAGAGAGGAUCUCAGAAAUGUAGGAAUGAGAACAUGAAGGAAAGUCUAAGAGCUAAUGUCUCCUCUACAUUGGAGGUCGAGACUUAGUUUCAUGUUUUCCUGAUGCCUCUCAUUCCUAUGGUUCUAGGGUGCUCCUUCCUCUUCC

miRBase

Precursor miRNA Structure(5'-3') 

           AAAGA   G    C    A             -A   GA       U UAA       U    ---        
GGAAGAGGAAG     GAG AUCU AGAA UGUAGGAAUGAGA  CAU  AGGAAAG C   GAGCUAA GUCU   CCUCUAC 
|||||||||||     ||| |||| |||| |||||||||||||  |||  ||||||| |   ||||||| ||||   |||||| A
CCUUCUCCUUC     CUC UGGG UCUU GUAUCCUUACUCU  GUA  UCCUUUU G   UUUGAUU CAGA   GGAGGUG 
           -----   G    A    G             CC   -G       - UAC       -    GCU

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

osa-miR2118m      UUCCUGAUGCCUCCCAUUCCUA
bdi-miR2118b      UUCCUGAUGCCUCCCAUUCCUA
osa-miR2118j      UUCCUGAUGCCUCCCAUUCCUA
osa-miR2118f      UUCCUGAUGCCUCCCAUUCCUA
zma-miR2118e      UUCCUGAUGUCUCCCAUUCCUA
osa-miR2118h      UUCCUGAUGCCUCUCAUUCCUA
osa-miR2118k      UUCCUGAUGCCUCUCAUUCCUA
zma-miR2118a      UUCCUGAUGCCUCUCAUUCCUA
osa-miR2118p      UUCCCGAUGCCUCCCAUGCCUA
osa-miR2118d      UUCCUGAUGCCUCCCAUGCCUA
osa-miR2118b      UUCCCGAUGCCUCCCAUUCCUA
osa-miR2118n      UUCCCGAUGCCUCCCAUUCCUA
zma-miR2118b      UUCCCGAUGCCUCCCAUUCCUA
osa-miR2118a      UUCUCGAUGCCUCCCAUUCCUA
bdi-miR2118a      UUUCCGAUGCCUCCCAUUCCUA
osa-miR2118c      UUCCCGAUGCCUCCUAUUCCUA
osa-miR2118q      UUCCCGAUGCCUCCUAUUCCUA
zma-miR2118g      UUCCUGAUGCCUCCUAUUCCUA
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