Variant report

Variant	rs9825506
Chromosome Location	chr3:50381295-50381296
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:50381268..50383319-chr3:50387134..50389655,3	MCF-7	breast:
2	chr3:50371739..50377775-chr3:50378206..50384768,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114388	Chromatin interaction
ENSG00000068028	Chromatin interaction
ENSG00000272104	Chromatin interaction
ENSG00000114395	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13316958	1.00[AFR][1000 genomes]
rs13321551	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs13323932	1.00[AFR][1000 genomes]
rs13324545	0.87[AFR][1000 genomes]
rs13327678	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7629425	1.00[YRI][hapmap]
rs9311450	1.00[YRI][hapmap]
rs9311452	1.00[YRI][hapmap]
rs9811223	1.00[AFR][1000 genomes]
rs9820116	1.00[AFR][1000 genomes]
rs9826259	1.00[YRI][hapmap]
rs9828683	0.87[AFR][1000 genomes]
rs9829573	1.00[AFR][1000 genomes]
rs9835838	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs9849605	0.87[AFR][1000 genomes]
rs9850145	1.00[AFR][1000 genomes]
rs9860546	1.00[AFR][1000 genomes]
rs9864231	0.87[AFR][1000 genomes]
rs9875449	0.89[AFR][1000 genomes]
rs9883977	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523662	chr3:50144951-50584999	Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	nsv876769	chr3:50155468-50408398	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
3	esv1821728	chr3:50156142-50657253	Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
4	esv1793751	chr3:50157364-50476363	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
5	esv1828162	chr3:50157364-50506151	Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
6	nsv470561	chr3:50158774-50584999	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	99 gene(s)	inside rSNPs	diseases
7	nsv876770	chr3:50158774-50609624	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
8	nsv1001993	chr3:50187646-50640808	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers 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 miRNA target site	104 gene(s)	inside rSNPs	diseases
9	nsv834692	chr3:50198485-50393464	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
10	nsv590254	chr3:50243510-50388607	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
11	nsv460531	chr3:50247824-50436827	Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
12	nsv590255	chr3:50247824-50436827	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
13	nsv876772	chr3:50255305-50436827	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	93 gene(s)	inside rSNPs	diseases
14	nsv590257	chr3:50302830-50393640	Genic enhancers Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
15	nsv590256	chr3:50302830-50420554	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
16	nsv876774	chr3:50302830-50436827	Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
17	nsv876773	chr3:50302830-50480131	Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
18	nsv834693	chr3:50302830-50507964	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
19	nsv876775	chr3:50324672-50504896	Flanking Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
20	esv3584502	chr3:50368278-50659741	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:50378600-50383200	Weak transcription	Aorta	Aorta
2	chr3:50378600-50384800	Weak transcription	Dnd41	blood
3	chr3:50378800-50382400	Weak transcription	Brain Angular Gyrus	brain
4	chr3:50378800-50382400	Weak transcription	Pancreas	Pancrea
5	chr3:50378800-50382600	Weak transcription	HUVEC	blood vessel
6	chr3:50378800-50382800	Weak transcription	Ovary	ovary
7	chr3:50378800-50382800	Weak transcription	HMEC	breast
8	chr3:50378800-50382800	Weak transcription	HSMMtube	muscle
9	chr3:50379000-50382400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:50379000-50382400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:50379000-50382400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:50379000-50382600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr3:50379000-50382600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:50379000-50382800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:50379000-50382800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr3:50379000-50382800	Weak transcription	Left Ventricle	heart
17	chr3:50379000-50382800	Weak transcription	Thymus	Thymus
18	chr3:50379000-50382800	Weak transcription	NHEK	skin
19	chr3:50379000-50383000	Weak transcription	Brain Substantia Nigra	brain
20	chr3:50379000-50386800	Weak transcription	Small Intestine	intestine
21	chr3:50379200-50381600	Enhancers	K562	blood
22	chr3:50379200-50382400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:50379200-50382400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr3:50379200-50382400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:50379200-50382400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr3:50379200-50382400	Weak transcription	Brain Anterior Caudate	brain
27	chr3:50379200-50382400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr3:50379200-50382600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr3:50379200-50382600	Weak transcription	Liver	Liver
30	chr3:50379200-50382600	Weak transcription	Colonic Mucosa	Colon
31	chr3:50379200-50382600	Weak transcription	Colon Smooth Muscle	Colon
32	chr3:50379200-50382600	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr3:50379200-50382600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr3:50379200-50382600	Weak transcription	NHLF	lung
35	chr3:50379200-50382600	Weak transcription	Osteobl	bone
36	chr3:50379200-50382800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:50379200-50382800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr3:50379200-50382800	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr3:50379200-50382800	Weak transcription	Right Atrium	heart
40	chr3:50379200-50383000	Weak transcription	Primary T cells from cord blood	blood
41	chr3:50379200-50383000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
42	chr3:50379400-50382400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr3:50379400-50382400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr3:50379400-50382400	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr3:50379400-50382600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr3:50379400-50382600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr3:50379400-50382600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr3:50379400-50382600	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr3:50379400-50382600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr3:50379400-50382600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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