Variant report

Variant	rs1923506
Chromosome Location	chr1:152359700-152359701
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:152358713..152362980-chr1:152363568..152366676,4	MCF-7	breast:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10788835	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10888486	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs11204982	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11204984	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11204985	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11204986	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11204987	0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11204995	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11204996	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11204997	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11204998	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11301808	0.93[ASN][1000 genomes]
rs11588022	0.91[ASN][1000 genomes]
rs11803108	0.93[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs12022217	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12027445	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12029633	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12032854	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12049036	0.81[JPT][hapmap]
rs12402680	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12403031	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12407319	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12408401	0.93[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12568784	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1858485	0.93[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1923493	0.82[JPT][hapmap]
rs1923505	0.94[ASN][1000 genomes]
rs1933066	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2065954	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2146119	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap]
rs2275264	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2282303	0.93[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2525	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3120665	0.93[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3120666	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3120667	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3126099	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs3753443	0.86[JPT][hapmap]
rs3753444	0.82[JPT][hapmap]
rs3818831	0.93[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3829868	0.85[JPT][hapmap]
rs4285700	0.86[JPT][hapmap]
rs4378206	0.93[CEU][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs45541239	0.94[ASN][1000 genomes]
rs6587668	0.93[ASN][1000 genomes]
rs6679449	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs6693160	0.93[ASN][1000 genomes]
rs7514696	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7515448	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7521839	0.86[JPT][hapmap]
rs941935	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9633410	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014095	chr1:152104486-152454591	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1005472	chr1:152247763-152443448	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv535161	chr1:152247763-152443448	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv916016	chr1:152337775-152590520	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:152359200-152359800	Enhancers	Fetal Lung	lung
2	chr1:152359200-152360000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr1:152359400-152359800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:152359600-152359800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:152359600-152360000	Flanking Active TSS	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links