Variant report

Variant	rs3094090
Chromosome Location	chr6:30669956-30669957
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	chr6:30669574..30671126-chr6:30671820..30673785,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137337	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1079687	0.92[ASN][1000 genomes]
rs1109146	0.86[ASN][1000 genomes]
rs16867852	0.86[ASN][1000 genomes]
rs16897781	0.86[ASN][1000 genomes]
rs16897791	0.86[ASN][1000 genomes]
rs2075015	0.90[ASN][1000 genomes]
rs2239886	0.98[ASN][1000 genomes]
rs2269702	0.90[ASN][1000 genomes]
rs2269707	0.86[ASN][1000 genomes]
rs2285321	0.86[ASN][1000 genomes]
rs2394392	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28986465	0.90[ASN][1000 genomes]
rs3132595	0.92[ASN][1000 genomes]
rs3132608	0.92[ASN][1000 genomes]
rs61486053	0.86[ASN][1000 genomes]
rs6924270	0.98[ASN][1000 genomes]
rs6929626	0.98[ASN][1000 genomes]
rs6929698	0.90[ASN][1000 genomes]
rs6931293	0.90[ASN][1000 genomes]
rs6937357	0.86[ASN][1000 genomes]
rs7756147	0.85[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7762626	0.90[ASN][1000 genomes]
rs9295901	0.84[ASN][1000 genomes]
rs9295902	0.86[ASN][1000 genomes]
rs9295904	0.82[ASN][1000 genomes]
rs9295905	0.90[ASN][1000 genomes]
rs9295907	0.86[ASN][1000 genomes]
rs9295908	0.90[ASN][1000 genomes]
rs9295909	0.90[ASN][1000 genomes]
rs9461620	0.86[ASN][1000 genomes]
rs9461623	0.90[ASN][1000 genomes]
rs9461624	0.90[ASN][1000 genomes]
rs9468803	0.86[ASN][1000 genomes]
rs9468805	0.86[ASN][1000 genomes]
rs9468807	0.88[ASN][1000 genomes]
rs9468811	0.90[ASN][1000 genomes]
rs9468813	0.90[ASN][1000 genomes]
rs9468814	0.98[ASN][1000 genomes]
rs9501338	0.90[ASN][1000 genomes]
rs9501481	0.98[ASN][1000 genomes]
rs9501482	0.98[ASN][1000 genomes]
rs9501483	0.90[ASN][1000 genomes]
rs9501484	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
2	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS 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	1012 gene(s)	inside rSNPs	diseases
4	esv3430377	chr6:30443802-30814426	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	967 gene(s)	inside rSNPs	diseases
5	nsv884086	chr6:30462084-30672757	Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	798 gene(s)	inside rSNPs	diseases
6	nsv830626	chr6:30558064-30732905	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	406 gene(s)	inside rSNPs	diseases
7	esv2758041	chr6:30644693-30816319	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	223 gene(s)	inside rSNPs	diseases
8	esv2759413	chr6:30644693-30816319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription 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	223 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30658800-30670200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:30658800-30670400	Weak transcription	Lung	lung
3	chr6:30659000-30670200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:30659000-30670200	Weak transcription	Esophagus	oesophagus
5	chr6:30659000-30670200	Weak transcription	Gastric	stomach
6	chr6:30659000-30670200	Weak transcription	Ovary	ovary
7	chr6:30659000-30670200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:30659000-30670200	Weak transcription	Spleen	Spleen
9	chr6:30659000-30670400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:30659000-30670800	Weak transcription	Right Ventricle	heart
11	chr6:30659200-30670000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:30659200-30670200	Weak transcription	Colonic Mucosa	Colon
13	chr6:30659200-30670400	Weak transcription	Aorta	Aorta
14	chr6:30659200-30670400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr6:30659200-30673400	Weak transcription	Psoas Muscle	Psoas
16	chr6:30659200-30684200	Weak transcription	Right Atrium	heart
17	chr6:30659400-30670200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr6:30659400-30671000	Weak transcription	Colon Smooth Muscle	Colon
19	chr6:30659400-30672800	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr6:30659400-30675800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr6:30659400-30684400	Weak transcription	Stomach Mucosa	stomach
22	chr6:30659600-30670000	Weak transcription	Primary T cells from cord blood	blood
23	chr6:30659600-30670000	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:30659600-30670000	Weak transcription	Brain Anterior Caudate	brain
25	chr6:30659600-30670000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr6:30659600-30670200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr6:30659600-30670200	Weak transcription	Brain Angular Gyrus	brain
28	chr6:30659600-30670200	Weak transcription	Brain Cingulate Gyrus	brain
29	chr6:30659600-30670200	Weak transcription	Fetal Lung	lung
30	chr6:30659600-30670200	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr6:30659600-30670200	Weak transcription	Rectal Smooth Muscle	rectum
32	chr6:30659600-30670400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr6:30659600-30670400	Weak transcription	Primary hematopoietic stem cells	blood
34	chr6:30659600-30670400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr6:30659600-30670400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr6:30659600-30670400	Weak transcription	HUVEC	blood vessel
37	chr6:30659600-30670800	Weak transcription	Primary B cells from cord blood	blood
38	chr6:30659600-30672200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr6:30659600-30680600	Weak transcription	Fetal Heart	heart
40	chr6:30659600-30684200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr6:30659600-30684200	Weak transcription	Fetal Brain Male	brain
42	chr6:30659600-30684800	Weak transcription	Small Intestine	intestine
43	chr6:30659800-30674800	Weak transcription	GM12878-XiMat	blood
44	chr6:30663200-30674400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr6:30663200-30674600	Weak transcription	A549	lung
46	chr6:30663200-30677000	Weak transcription	NHDF-Ad	bronchial
47	chr6:30663200-30677400	Weak transcription	Fetal Kidney	kidney
48	chr6:30663200-30678600	Weak transcription	HMEC	breast
49	chr6:30663400-30677400	Weak transcription	NH-A	brain
50	chr6:30663600-30670200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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