Variant report

Variant	rs9295233
Chromosome Location	chr6:164261076-164261077
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1028485	0.82[EUR][1000 genomes]
rs1040641	0.90[ASN][1000 genomes]
rs10806784	0.82[EUR][1000 genomes]
rs1111705	0.88[ASN][1000 genomes]
rs13203619	1.00[ASN][1000 genomes]
rs1555229	0.81[CHB][hapmap]
rs2015261	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4709760	0.88[ASN][1000 genomes]
rs4709765	0.90[ASN][1000 genomes]
rs4709766	0.90[ASN][1000 genomes]
rs4709773	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4709775	0.82[EUR][1000 genomes]
rs6925383	0.83[ASN][1000 genomes]
rs7762180	0.83[ASN][1000 genomes]
rs7765258	0.82[ASN][1000 genomes]
rs8180622	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs880095	0.93[ASN][1000 genomes]
rs9295231	0.89[ASN][1000 genomes]
rs9295232	0.92[ASN][1000 genomes]
rs9295234	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9346974	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9346975	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9347790	0.82[ASN][1000 genomes]
rs9347791	0.89[ASN][1000 genomes]
rs9347792	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9347793	0.90[ASN][1000 genomes]
rs9347798	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9347799	0.83[EUR][1000 genomes]
rs9355439	0.90[ASN][1000 genomes]
rs9355440	0.93[ASN][1000 genomes]
rs9355442	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9356152	0.82[ASN][1000 genomes]
rs9356153	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9356156	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9356159	0.81[EUR][1000 genomes]
rs9356160	0.82[EUR][1000 genomes]
rs9364703	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9365619	0.93[ASN][1000 genomes]
rs9365620	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9365624	0.82[EUR][1000 genomes]
rs9365625	0.82[EUR][1000 genomes]
rs9456885	0.90[ASN][1000 genomes]
rs9458911	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018860	chr6:163939347-164532579	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538526	chr6:163939347-164532579	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1026707	chr6:164188210-164749206	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv538527	chr6:164188210-164749206	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv1798922	chr6:164257563-164298780	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9295233	NCRNA00241	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:164259200-164261200	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr6:164259200-164261600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:164259200-164262400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:164259200-164262600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:164259400-164261200	Weak transcription	Fetal Kidney	kidney
6	chr6:164259400-164262600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr6:164259400-164264200	Weak transcription	Fetal Brain Male	brain
8	chr6:164260600-164262600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:164260600-164264000	Weak transcription	Fetal Heart	heart

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