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-miR2118f

Organism

Oryza sativa

Species

Mature miRNA Sequence(5'-3')

UUCCUGAUGCCUCCCAUUCCUA

miRBase

Precursor miRNA Sequence(5'-3')

GUGAGCCAGGGAAGAGGAAGAACGAGAGGGUUCAAUAGCAGUGGGAAUGGGAACAUGGAGGAAAGCAUGAGCUCUAAAUUUCCUCCAAAGGAGAUCCUGCUUUGUGUUUUCCUGAUGCCUCCCAUUCCUAUUGUUCUUGGGUGCUCCUUCCCCUUCCUUCUUGGCUUGC

miRBase

Precursor miRNA Structure(5'-3') 

        ---      A     AACGA   G      U                -A   GG            -  UCUAA       C 
GUGAGCCA   GGGAAG GGAAG     GAG GUUCAA AGCAGUGGGAAUGGGA  CAU  AGGAAAGCAUGA GC     AUUUCCU C
||||||||   |||||| |||||     ||| |||||| ||||||||||||||||  |||  |||||||||||| ||     |||||||  
CGUUCGGU   UCCUUC CCUUC     CUC UGGGUU UUGUUAUCCUUACCCU  GUA  UCCUUUUGUGUU CG     UAGAGGA A
        UCU      C     -----   G      C                CC   -G            U  --UCC       A

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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