Variant report

Variant	rs6682552
Chromosome Location	chr1:223567808-223567809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:223534957..223537393-chr1:223566287..223567830,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143502	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10907375	0.80[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11261265	0.92[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs11261268	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11261269	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11579995	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12064476	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12074609	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12074782	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12078619	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12082133	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12087387	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12094897	1.00[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12405882	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1400964	0.80[CHB][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1621030	0.82[ASN][1000 genomes]
rs17162005	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17163836	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1914612	0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2298063	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2353204	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2501982	0.96[EUR][1000 genomes]
rs2678369	0.80[CHB][hapmap]
rs28788929	0.90[ASN][1000 genomes]
rs28897212	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs34482638	1.00[AMR][1000 genomes]
rs35059272	1.00[AMR][1000 genomes]
rs35345617	0.80[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs35727959	0.80[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs35736338	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs35996176	0.80[CHB][hapmap];1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs59584296	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61838203	0.88[AMR][1000 genomes]
rs61838204	0.88[AMR][1000 genomes]
rs61838211	1.00[AMR][1000 genomes]
rs61838232	0.81[ASN][1000 genomes]
rs61838233	1.00[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61838244	0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs61838245	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6661314	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6677044	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6679661	1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6689850	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6700523	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6701453	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs825148	0.80[CHB][hapmap]
rs866637	0.80[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832670	chr1:223561771-223683381	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv4687	chr1:223565080-223610362	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223566800-223568600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:223567200-223568000	ZNF genes & repeats	Lung	lung
3	chr1:223567400-223568000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links