Variant report

Variant	rs11920369
Chromosome Location	chr3:143602231-143602232
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	chr3:143601941..143604638-chr3:143689903..143691740,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181744	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10513218	1.00[CEU][hapmap]
rs10513230	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10513231	1.00[CHB][hapmap];0.86[JPT][hapmap];0.95[ASN][1000 genomes]
rs10513232	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10513233	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs1394403	0.89[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1504605	0.85[JPT][hapmap]
rs16854417	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs16854421	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs16854423	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs16854424	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs16854463	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs16854493	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs16854503	1.00[CEU][hapmap]
rs16854525	1.00[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs16854588	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs16854594	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16854626	1.00[CEU][hapmap]
rs16854639	0.95[ASN][1000 genomes]
rs17275413	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1823220	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs2361199	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs2361210	1.00[CEU][hapmap]
rs3935022	0.92[EUR][1000 genomes]
rs3935023	0.92[EUR][1000 genomes]
rs3935024	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4072487	0.92[EUR][1000 genomes]
rs4839613	1.00[JPT][hapmap]
rs4839614	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4839659	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4839660	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4839661	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs4839663	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs55734708	0.88[ASN][1000 genomes]
rs56954087	0.95[ASN][1000 genomes]
rs57315003	1.00[EUR][1000 genomes]
rs57853180	0.95[ASN][1000 genomes]
rs58491946	0.92[EUR][1000 genomes]
rs58917148	0.95[ASN][1000 genomes]
rs59089060	0.95[ASN][1000 genomes]
rs60153350	0.92[EUR][1000 genomes]
rs60230497	0.95[ASN][1000 genomes]
rs60765943	0.86[ASN][1000 genomes]
rs61195916	0.95[ASN][1000 genomes]
rs61534234	0.95[ASN][1000 genomes]
rs61574504	0.84[ASN][1000 genomes]
rs6440202	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6763899	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs6765414	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs6769847	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs6780983	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs6792031	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs6799226	0.82[JPT][hapmap]
rs6803662	1.00[CEU][hapmap]
rs6804065	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs73010566	0.93[ASN][1000 genomes]
rs73871853	0.88[ASN][1000 genomes]
rs73871854	0.88[ASN][1000 genomes]
rs73871855	0.88[ASN][1000 genomes]
rs73871858	0.95[ASN][1000 genomes]
rs73871859	0.95[ASN][1000 genomes]
rs73871860	0.95[ASN][1000 genomes]
rs73871861	0.95[ASN][1000 genomes]
rs7617512	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs7617571	0.92[EUR][1000 genomes]
rs7628380	1.00[CEU][hapmap]
rs7628606	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7650329	1.00[CEU][hapmap]
rs7651412	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs7652644	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs924851	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs924852	0.92[EUR][1000 genomes]
rs924853	0.92[EUR][1000 genomes]
rs924854	0.92[EUR][1000 genomes]
rs924855	0.92[EUR][1000 genomes]
rs951594	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs951595	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9822158	0.89[CHB][hapmap];1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009935	chr3:143497700-143610852	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143601600-143602600	Enhancers	HMEC	breast
2	chr3:143601600-143602600	Enhancers	NHEK	skin
3	chr3:143601800-143602400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:143601800-143602600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:143601800-143602800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:143602200-143602600	Enhancers	HUES48 Cell Line	embryonic stem cell

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