Variant report

Variant	rs17067245
Chromosome Location	chr6:106994632-106994633
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:106988236..106991971-chr6:106994585..106996382,3	MCF-7	breast:
2	chr6:106958366..106960246-chr6:106994046..106995660,2	MCF-7	breast:
3	chr6:106982665..106985601-chr6:106993025..106995759,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112297	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10499046	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12523666	0.92[CHB][hapmap];0.87[ASN][1000 genomes]
rs12523769	0.82[CHB][hapmap];0.81[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12524955	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12524961	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12525004	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12525311	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs12525436	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12525583	0.84[ASN][1000 genomes]
rs12526024	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12527773	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[EUR][1000 genomes]
rs12528136	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12528406	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12528553	0.95[EUR][1000 genomes]
rs12529961	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12530093	1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs12663120	1.00[CEU][hapmap];0.93[CHB][hapmap]
rs17067217	0.93[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17067219	1.00[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17067226	1.00[CEU][hapmap];0.93[CHB][hapmap];0.83[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17067371	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17067393	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17067395	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17067428	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17067432	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17067435	1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17067443	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17067445	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17067469	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17067613	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[EUR][1000 genomes]
rs17067614	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[EUR][1000 genomes]
rs1979347	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[EUR][1000 genomes]
rs2353035	1.00[CEU][hapmap]
rs2353041	1.00[CEU][hapmap]
rs2792467	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3761800	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[EUR][1000 genomes]
rs3789230	0.95[EUR][1000 genomes]
rs3804339	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4363071	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[EUR][1000 genomes]
rs4946766	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56664576	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56725742	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56845422	0.95[EUR][1000 genomes]
rs58482231	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58620450	0.87[ASN][1000 genomes]
rs59480706	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59668897	0.95[EUR][1000 genomes]
rs59962977	0.87[ASN][1000 genomes]
rs72945007	0.87[ASN][1000 genomes]
rs72945013	0.87[ASN][1000 genomes]
rs72945015	0.87[ASN][1000 genomes]
rs72945026	0.87[ASN][1000 genomes]
rs72945035	0.87[ASN][1000 genomes]
rs72945036	0.87[ASN][1000 genomes]
rs72945040	0.87[ASN][1000 genomes]
rs72945046	0.87[ASN][1000 genomes]
rs72945053	0.87[ASN][1000 genomes]
rs72945059	0.87[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:85 , 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	chr6:106981600-106995600	Weak transcription	Colonic Mucosa	Colon
6	chr6:106982400-107000800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:106985800-107019200	Weak transcription	Aorta	Aorta
8	chr6:106986400-106995000	Weak transcription	Thymus	Thymus
9	chr6:106988200-107001400	Weak transcription	Lung	lung
10	chr6:106988400-106995600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr6:106989800-106995800	Weak transcription	Fetal Stomach	stomach
12	chr6:106991200-106999600	Strong transcription	Dnd41	blood
13	chr6:106991400-106994800	Strong transcription	Liver	Liver
14	chr6:106992000-106994800	Weak transcription	Fetal Intestine Small	intestine
15	chr6:106992000-106995400	Weak transcription	Colon Smooth Muscle	Colon
16	chr6:106992600-106996400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr6:106992600-106996600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:106992800-106995800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:106993200-106996400	Genic enhancers	Primary B cells from peripheral blood	blood
20	chr6:106993200-106996600	Enhancers	Primary hematopoietic stem cells	blood
21	chr6:106993400-106995000	Genic enhancers	Placenta	Placenta
22	chr6:106993400-106995200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr6:106993400-106996000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
24	chr6:106993400-106996000	Enhancers	Adipose Nuclei	Adipose
25	chr6:106993600-106996200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:106993600-106998400	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr6:106993800-106994800	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr6:106993800-106995000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
29	chr6:106993800-106995000	Enhancers	NHLF	lung
30	chr6:106993800-106995800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
31	chr6:106993800-106996200	Enhancers	HSMM	muscle
32	chr6:106993800-106996400	Enhancers	Fetal Lung	lung
33	chr6:106993800-106996400	Enhancers	Osteobl	bone
34	chr6:106993800-106996600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:106993800-106996600	Enhancers	Breast Myoepithelial Primary Cells	Breast
36	chr6:106993800-106996600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:106993800-106996600	Enhancers	NH-A	brain
38	chr6:106994000-106994800	Genic enhancers	Primary T cells from cord blood	blood
39	chr6:106994000-106994800	Enhancers	Hela-S3	cervix
40	chr6:106994000-106994800	Enhancers	HMEC	breast
41	chr6:106994000-106995000	Enhancers	Stomach Mucosa	stomach
42	chr6:106994000-106995200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr6:106994000-106996000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr6:106994000-106996000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr6:106994000-106996600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr6:106994000-106996600	Enhancers	HepG2	liver
47	chr6:106994000-107017800	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr6:106994200-106995200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr6:106994200-106995800	Enhancers	ES-I3 Cell Line	embryonic stem cell
50	chr6:106994200-106996400	Enhancers	A549	lung

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