Variant report

Variant	rs2792467
Chromosome Location	chr6:106996675-106996676
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:106937771..106940207-chr6:106996030..106997572,2	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10499046	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12523666	0.81[ASN][1000 genomes]
rs12523769	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12524955	0.91[EUR][1000 genomes]
rs12524961	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12525004	0.81[ASN][1000 genomes]
rs12525311	0.83[ASN][1000 genomes]
rs12525436	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12526024	0.81[ASN][1000 genomes]
rs12527773	0.91[EUR][1000 genomes]
rs12528136	0.81[ASN][1000 genomes]
rs12528406	0.81[ASN][1000 genomes]
rs12528553	0.91[EUR][1000 genomes]
rs12529961	0.81[ASN][1000 genomes]
rs12530093	0.81[ASN][1000 genomes]
rs17067217	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17067219	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17067226	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17067245	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17067371	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17067393	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17067395	0.81[ASN][1000 genomes]
rs17067428	0.81[ASN][1000 genomes]
rs17067432	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17067435	0.81[ASN][1000 genomes]
rs17067443	0.81[ASN][1000 genomes]
rs17067445	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17067469	0.91[EUR][1000 genomes]
rs17067613	0.91[EUR][1000 genomes]
rs17067614	0.91[EUR][1000 genomes]
rs1979347	0.91[EUR][1000 genomes]
rs3761800	0.91[EUR][1000 genomes]
rs3789230	0.91[EUR][1000 genomes]
rs3804339	0.91[EUR][1000 genomes]
rs4363071	0.91[EUR][1000 genomes]
rs4946766	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56664576	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56725742	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56845422	0.91[EUR][1000 genomes]
rs58482231	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58620450	0.81[ASN][1000 genomes]
rs59480706	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59668897	0.91[EUR][1000 genomes]
rs59962977	0.81[ASN][1000 genomes]
rs72945007	0.81[ASN][1000 genomes]
rs72945013	0.81[ASN][1000 genomes]
rs72945015	0.81[ASN][1000 genomes]
rs72945026	0.81[ASN][1000 genomes]
rs72945035	0.81[ASN][1000 genomes]
rs72945036	0.81[ASN][1000 genomes]
rs72945040	0.81[ASN][1000 genomes]
rs72945046	0.81[ASN][1000 genomes]
rs72945053	0.81[ASN][1000 genomes]
rs72945059	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer 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 target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
4	nsv1017419	chr6:106984669-106997000	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106961000-107001400	Weak transcription	Gastric	stomach
2	chr6:106964800-107029800	Weak transcription	Small Intestine	intestine
3	chr6:106970600-107022400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:106979000-107001400	Weak transcription	Pancreas	Pancrea
5	chr6:106982400-107000800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:106985800-107019200	Weak transcription	Aorta	Aorta
7	chr6:106988200-107001400	Weak transcription	Lung	lung
8	chr6:106991200-106999600	Strong transcription	Dnd41	blood
9	chr6:106993600-106998400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:106994000-107017800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:106994200-106997000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:106994200-107000200	Weak transcription	Esophagus	oesophagus
13	chr6:106994200-107009000	Weak transcription	Left Ventricle	heart
14	chr6:106994200-107019400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr6:106994200-107019600	Strong transcription	Primary T cells fromperipheralblood	blood
16	chr6:106994400-107000800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr6:106994600-106997000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:106994600-106999600	Strong transcription	GM12878-XiMat	blood
19	chr6:106994600-107001400	Weak transcription	Spleen	Spleen
20	chr6:106994800-107000800	Weak transcription	Liver	Liver
21	chr6:106994800-107004200	Strong transcription	Primary T cells from cord blood	blood
22	chr6:106994800-107004600	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr6:106994800-107004600	Weak transcription	Hela-S3	cervix
24	chr6:106995000-106999200	Enhancers	Primary neutrophils fromperipheralblood	blood
25	chr6:106995000-106999200	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr6:106995000-107019400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr6:106995200-106996800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:106995200-106997000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr6:106995200-106997000	Enhancers	HMEC	breast
30	chr6:106995200-107002000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr6:106995200-107016200	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr6:106995200-107018800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr6:106995800-106998000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr6:106995800-107001400	Weak transcription	Thymus	Thymus
35	chr6:106995800-107003800	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr6:106995800-107004400	Strong transcription	Rectal Mucosa Donor 31	rectum
37	chr6:106996000-107000800	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr6:106996000-107000800	Weak transcription	Adipose Nuclei	Adipose
39	chr6:106996000-107003400	Weak transcription	Colonic Mucosa	Colon
40	chr6:106996200-106997000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr6:106996200-106997000	Weak transcription	Duodenum Mucosa	Duodenum
42	chr6:106996200-106997200	Genic enhancers	Placenta	Placenta
43	chr6:106996200-106997200	Genic enhancers	Monocytes-CD14+_RO01746	blood
44	chr6:106996200-106997600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr6:106996200-106997800	Weak transcription	Primary B cells from cord blood	blood
46	chr6:106996200-107001400	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr6:106996200-107002000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:106996200-107017200	Weak transcription	HSMM	muscle
49	chr6:106996200-107018400	Weak transcription	Fetal Stomach	stomach
50	chr6:106996200-107022400	Weak transcription	Ovary	ovary

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