Variant report

Variant	rs73820006
Chromosome Location	chr3:24632580-24632581
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24536512..24538527-chr3:24630331..24633060,2	MCF-7	breast:
2	chr3:24631935..24633898-chr3:24636048..24638829,2	MCF-7	breast:
3	chr3:24535097..24538455-chr3:24631744..24636761,7	MCF-7	breast:
4	chr3:24350162..24351776-chr3:24632242..24634979,2	MCF-7	breast:
5	chr3:24599960..24602220-chr3:24631656..24634494,2	K562	blood:
6	chr3:24631555..24633388-chr8:96154726..96156328,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000151090	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs17014787	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17014855	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17014897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17014945	0.91[AFR][1000 genomes]
rs17014965	0.91[AFR][1000 genomes]
rs55783210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56382519	1.00[AMR][1000 genomes]
rs56835827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58351306	0.83[AFR][1000 genomes]
rs61544851	0.84[AFR][1000 genomes]
rs73820011	1.00[EUR][1000 genomes]
rs73820018	0.91[AFR][1000 genomes]
rs73820022	0.91[AFR][1000 genomes]
rs73820028	0.84[AFR][1000 genomes]
rs73823368	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823371	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825636	0.83[AFR][1000 genomes]
rs73825637	0.83[AFR][1000 genomes]
rs73825638	0.83[AFR][1000 genomes]
rs73825639	0.83[AFR][1000 genomes]
rs73826118	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73826119	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73826120	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826121	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9833428	1.00[EUR][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	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
2	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
3	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:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24621200-24633400	Weak transcription	K562	blood
2	chr3:24628800-24633000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:24629600-24633600	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr3:24629800-24633200	Enhancers	Fetal Lung	lung
5	chr3:24630600-24632800	Weak transcription	Stomach Mucosa	stomach
6	chr3:24630800-24634200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:24630800-24640800	Weak transcription	Small Intestine	intestine
8	chr3:24631000-24632800	Enhancers	HUVEC	blood vessel
9	chr3:24631200-24636000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:24631400-24634600	Enhancers	HMEC	breast
11	chr3:24631400-24635200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr3:24631600-24633400	Enhancers	NHEK	skin
13	chr3:24631600-24634200	Enhancers	Muscle Satellite Cultured Cells	--
14	chr3:24631600-24634200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:24631600-24634400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:24631600-24634400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:24631800-24632600	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:24631800-24634600	Enhancers	Fetal Intestine Large	intestine
19	chr3:24632000-24632800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:24632000-24633000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr3:24632000-24633400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr3:24632000-24636200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:24632000-24637200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr3:24632000-24640000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr3:24632200-24632600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:24632200-24632600	Weak transcription	Fetal Intestine Small	intestine
27	chr3:24632200-24633000	Weak transcription	Fetal Brain Male	brain
28	chr3:24632200-24635800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:24632200-24637200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:24632400-24632800	Weak transcription	NHDF-Ad	bronchial

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