Variant report

Variant	rs1572964
Chromosome Location	chr6:128916020-128916021
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:128839123..128844576-chr6:128915695..128924187,20	MCF-7	breast:
2	chr6:128852805..128854332-chr6:128915251..128916981,2	MCF-7	breast:
3	chr6:128829914..128831519-chr6:128915307..128916935,2	MCF-7	breast:
4	chr6:128838418..128841487-chr6:128915011..128917718,3	MCF-7	breast:
5	chr6:128913529..128916197-chr6:128916953..128918922,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152894	Chromatin interaction

Extended variants
information (count: 128 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10085245	1.00[ASN][1000 genomes]
rs10085247	1.00[ASN][1000 genomes]
rs10085248	1.00[ASN][1000 genomes]
rs10223535	1.00[ASN][1000 genomes]
rs10872331	1.00[ASN][1000 genomes]
rs11154439	1.00[ASN][1000 genomes]
rs11154440	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751628	1.00[ASN][1000 genomes]
rs11752256	1.00[ASN][1000 genomes]
rs11753496	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11758545	1.00[ASN][1000 genomes]
rs11758690	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963575	1.00[ASN][1000 genomes]
rs12524679	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12525214	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526634	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12526667	1.00[ASN][1000 genomes]
rs12527086	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527265	0.93[CEU][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529229	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529511	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529947	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529948	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341584	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341585	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437323	1.00[ASN][1000 genomes]
rs1417896	0.93[CEU][hapmap];0.90[EUR][1000 genomes]
rs17055952	1.00[ASN][1000 genomes]
rs17056043	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17364020	1.00[ASN][1000 genomes]
rs17364090	1.00[ASN][1000 genomes]
rs17364118	1.00[ASN][1000 genomes]
rs17364153	1.00[ASN][1000 genomes]
rs17461370	1.00[ASN][1000 genomes]
rs17461759	1.00[ASN][1000 genomes]
rs1935131	1.00[ASN][1000 genomes]
rs2144376	0.93[CEU][hapmap]
rs2326702	1.00[ASN][1000 genomes]
rs55988836	1.00[ASN][1000 genomes]
rs57922933	1.00[ASN][1000 genomes]
rs62425737	1.00[ASN][1000 genomes]
rs62425738	1.00[ASN][1000 genomes]
rs62425739	1.00[ASN][1000 genomes]
rs62425740	1.00[ASN][1000 genomes]
rs62425742	1.00[ASN][1000 genomes]
rs62425743	1.00[ASN][1000 genomes]
rs62425744	1.00[ASN][1000 genomes]
rs62426790	1.00[ASN][1000 genomes]
rs62426791	1.00[ASN][1000 genomes]
rs62426792	1.00[ASN][1000 genomes]
rs62426793	1.00[ASN][1000 genomes]
rs62426794	1.00[ASN][1000 genomes]
rs62426795	1.00[ASN][1000 genomes]
rs62426796	1.00[ASN][1000 genomes]
rs62426797	1.00[ASN][1000 genomes]
rs62426798	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426799	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426800	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426801	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426804	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426805	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426806	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426840	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426841	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426842	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426844	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426845	0.88[EUR][1000 genomes]
rs62426846	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426847	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426848	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426850	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426851	1.00[ASN][1000 genomes]
rs62426853	1.00[ASN][1000 genomes]
rs62427780	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62427781	1.00[ASN][1000 genomes]
rs6569529	1.00[ASN][1000 genomes]
rs6569535	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs6569536	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs6916294	0.87[EUR][1000 genomes]
rs714782	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7356818	1.00[ASN][1000 genomes]
rs7356823	0.93[CEU][hapmap];0.90[EUR][1000 genomes]
rs7356912	1.00[ASN][1000 genomes]
rs7454742	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs766306	1.00[ASN][1000 genomes]
rs7738739	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739600	1.00[ASN][1000 genomes]
rs7748742	1.00[ASN][1000 genomes]
rs7751094	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751265	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs7752487	1.00[ASN][1000 genomes]
rs7754729	0.90[EUR][1000 genomes]
rs7760287	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760572	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760682	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765212	1.00[ASN][1000 genomes]
rs7768240	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771701	1.00[ASN][1000 genomes]
rs9321122	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9375578	0.92[CEU][hapmap];0.90[EUR][1000 genomes]
rs9388647	0.90[EUR][1000 genomes]
rs9388648	0.87[EUR][1000 genomes]
rs9388649	0.90[EUR][1000 genomes]
rs9388650	0.90[EUR][1000 genomes]
rs9402055	0.90[EUR][1000 genomes]
rs9482892	1.00[ASN][1000 genomes]
rs9482893	1.00[ASN][1000 genomes]
rs9482897	1.00[ASN][1000 genomes]
rs9482902	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9482904	1.00[ASN][1000 genomes]
rs9491988	1.00[ASN][1000 genomes]
rs9492000	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492002	0.92[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492003	0.90[EUR][1000 genomes]
rs9492004	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492005	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492008	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492011	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492013	1.00[ASN][1000 genomes]
rs9492014	1.00[ASN][1000 genomes]
rs9492017	0.92[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492018	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492020	1.00[ASN][1000 genomes]
rs9492021	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv830801	chr6:128878436-129064667	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128915200-128919400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:128915800-128919400	Enhancers	NHEK	skin
3	chr6:128916000-128916200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:128916000-128923400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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