Variant report

Variant	rs12106164
Chromosome Location	chr20:25158262-25158263
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr20:24972385..24977147-chr20:25157333..25161116,4	MCF-7	breast:
2	chr20:24972397..24974950-chr20:25156832..25158659,3	MCF-7	breast:
3	chr20:24972101..24974320-chr20:25156904..25159299,2	K562	blood:
4	chr20:25125758..25128401-chr20:25158133..25159893,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101474	Chromatin interaction
ENSG00000230725	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs11907003	1.00[EUR][1000 genomes]
rs11908037	1.00[EUR][1000 genomes]
rs12106059	1.00[EUR][1000 genomes]
rs12373881	1.00[EUR][1000 genomes]
rs2500428	1.00[EUR][1000 genomes]
rs28435893	1.00[EUR][1000 genomes]
rs28551104	1.00[EUR][1000 genomes]
rs35022349	1.00[EUR][1000 genomes]
rs35073849	1.00[EUR][1000 genomes]
rs56273742	1.00[EUR][1000 genomes]
rs57218388	1.00[EUR][1000 genomes]
rs57293656	1.00[EUR][1000 genomes]
rs58189090	1.00[EUR][1000 genomes]
rs58410604	1.00[EUR][1000 genomes]
rs58593226	1.00[EUR][1000 genomes]
rs58709664	1.00[EUR][1000 genomes]
rs58722006	1.00[EUR][1000 genomes]
rs58957358	1.00[EUR][1000 genomes]
rs59431257	1.00[EUR][1000 genomes]
rs59857017	1.00[EUR][1000 genomes]
rs60459445	1.00[EUR][1000 genomes]
rs60479943	1.00[EUR][1000 genomes]
rs6050367	1.00[EUR][1000 genomes]
rs60893899	1.00[EUR][1000 genomes]
rs6106987	1.00[EUR][1000 genomes]
rs7270236	1.00[EUR][1000 genomes]
rs73333142	1.00[EUR][1000 genomes]
rs73333167	1.00[EUR][1000 genomes]
rs73333174	1.00[EUR][1000 genomes]
rs73333187	1.00[EUR][1000 genomes]
rs73337199	1.00[EUR][1000 genomes]
rs73339096	1.00[EUR][1000 genomes]
rs73339099	1.00[EUR][1000 genomes]
rs73339100	1.00[EUR][1000 genomes]
rs73341103	1.00[EUR][1000 genomes]
rs73341112	1.00[EUR][1000 genomes]
rs73341114	1.00[EUR][1000 genomes]
rs73341120	1.00[EUR][1000 genomes]
rs73341122	1.00[EUR][1000 genomes]
rs73341124	1.00[EUR][1000 genomes]
rs73341128	1.00[EUR][1000 genomes]
rs73341131	1.00[EUR][1000 genomes]
rs73341135	1.00[EUR][1000 genomes]
rs73341140	1.00[EUR][1000 genomes]
rs73341143	1.00[EUR][1000 genomes]
rs73341155	1.00[EUR][1000 genomes]
rs73341157	1.00[EUR][1000 genomes]
rs73341171	1.00[EUR][1000 genomes]
rs73343010	1.00[EUR][1000 genomes]
rs73343043	1.00[EUR][1000 genomes]
rs73343050	1.00[EUR][1000 genomes]
rs73343053	1.00[EUR][1000 genomes]
rs73343058	1.00[EUR][1000 genomes]
rs73343090	1.00[EUR][1000 genomes]
rs73343097	1.00[EUR][1000 genomes]
rs73345003	1.00[EUR][1000 genomes]
rs73345011	1.00[EUR][1000 genomes]
rs73345016	1.00[EUR][1000 genomes]
rs73345021	1.00[EUR][1000 genomes]
rs73345030	1.00[EUR][1000 genomes]
rs73345040	1.00[EUR][1000 genomes]
rs73345068	1.00[EUR][1000 genomes]
rs73345069	1.00[EUR][1000 genomes]
rs73345071	1.00[EUR][1000 genomes]
rs73345073	1.00[EUR][1000 genomes]
rs73345082	1.00[EUR][1000 genomes]
rs73345087	1.00[EUR][1000 genomes]
rs73345088	1.00[EUR][1000 genomes]
rs73347023	1.00[EUR][1000 genomes]
rs73347042	1.00[EUR][1000 genomes]
rs73347058	1.00[EUR][1000 genomes]
rs73348712	1.00[EUR][1000 genomes]
rs73906055	1.00[EUR][1000 genomes]
rs73906057	1.00[EUR][1000 genomes]
rs73906063	1.00[EUR][1000 genomes]
rs73906065	1.00[EUR][1000 genomes]
rs73906067	1.00[EUR][1000 genomes]
rs73906068	1.00[EUR][1000 genomes]
rs73906070	1.00[EUR][1000 genomes]
rs73906071	1.00[EUR][1000 genomes]
rs73906072	1.00[EUR][1000 genomes]
rs8114108	1.00[EUR][1000 genomes]
rs8115188	1.00[EUR][1000 genomes]
rs8119273	1.00[EUR][1000 genomes]
rs8120601	1.00[EUR][1000 genomes]
rs8121557	1.00[EUR][1000 genomes]
rs8123929	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062140	chr20:24807962-25304054	Strong transcription Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv544219	chr20:24807962-25304054	Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv1056345	chr20:24819570-25168159	Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv1055341	chr20:24848416-25302271	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv1063494	chr20:25067286-25468557	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
6	nsv1063016	chr20:25067286-25475629	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
7	nsv1065101	chr20:25068046-25466542	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
8	nsv544220	chr20:25068046-25466542	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
9	nsv531480	chr20:25070067-25472684	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
10	nsv585746	chr20:25071454-25470056	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
11	nsv1062742	chr20:25071454-25475629	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
12	nsv949389	chr20:25071454-25506582	Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Active TSS 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	54 gene(s)	inside rSNPs	diseases
13	nsv531481	chr20:25080583-25448944	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
14	nsv949479	chr20:25096494-25467359	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
15	nsv1061109	chr20:25101715-25472685	Enhancers Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
16	nsv544221	chr20:25101715-25472685	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
17	nsv1066667	chr20:25133066-25238976	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
18	nsv544222	chr20:25133066-25238976	Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25155000-25158600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr20:25155000-25158600	Weak transcription	A549	lung
3	chr20:25155400-25158400	Weak transcription	Ovary	ovary
4	chr20:25155800-25161600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr20:25157000-25160200	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr20:25157200-25158800	Weak transcription	Pancreas	Pancrea
7	chr20:25157600-25159400	Weak transcription	Adipose Nuclei	Adipose
8	chr20:25158000-25160600	Enhancers	NHEK	skin
9	chr20:25158000-25160800	Enhancers	HMEC	breast
10	chr20:25158200-25159400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr20:25158200-25160200	Enhancers	Hela-S3	cervix
12	chr20:25158200-25160400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr20:25158200-25160400	Enhancers	NH-A	brain
14	chr20:25158200-25160400	Enhancers	Osteobl	bone
15	chr20:25158200-25160600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr20:25158200-25160800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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