Variant report

Variant	rs11715809
Chromosome Location	chr3:24636870-24636871
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24534908..24536428-chr3:24635223..24637063,2	MCF-7	breast:
2	chr3:24631935..24633898-chr3:24636048..24638829,2	MCF-7	breast:
3	chr3:24562239..24564510-chr3:24636184..24637774,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000265028	Chromatin interaction
ENSG00000151090	Chromatin interaction
ENSG00000228791	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10490837	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs17014900	0.86[EUR][1000 genomes]
rs17014902	0.86[EUR][1000 genomes]
rs2043579	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2196435	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28562279	0.90[EUR][1000 genomes]
rs55720954	1.00[AFR][1000 genomes]
rs56135387	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56268655	0.87[EUR][1000 genomes]
rs56281969	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73036489	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73036499	0.94[AFR][1000 genomes]
rs73036501	0.94[AFR][1000 genomes]
rs73038411	0.87[EUR][1000 genomes]
rs73038427	0.87[EUR][1000 genomes]
rs73040431	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040438	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs73040440	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040478	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040483	0.81[AFR][1000 genomes]

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	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	nsv999384	chr3:24525345-24656873	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24630800-24640800	Weak transcription	Small Intestine	intestine
2	chr3:24632000-24637200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:24632000-24640000	Weak transcription	Duodenum Mucosa	Duodenum
4	chr3:24632200-24637200	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr3:24633200-24640000	Weak transcription	Fetal Lung	lung
6	chr3:24633600-24637000	Weak transcription	Stomach Mucosa	stomach
7	chr3:24633600-24640000	Weak transcription	NHDF-Ad	bronchial
8	chr3:24633800-24637200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:24633800-24639600	Weak transcription	HUVEC	blood vessel
10	chr3:24633800-24640200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:24634200-24640000	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr3:24634600-24637000	Weak transcription	NHEK	skin
13	chr3:24634600-24637200	Weak transcription	Fetal Intestine Large	intestine
14	chr3:24634600-24637200	Weak transcription	Hela-S3	cervix
15	chr3:24635400-24637600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:24635600-24641400	Enhancers	HMEC	breast
17	chr3:24635800-24637200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:24636000-24637000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:24636000-24640000	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr3:24636000-24640200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr3:24636200-24637800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:24636600-24638400	Enhancers	Fetal Intestine Small	intestine
23	chr3:24636800-24638800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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