Variant report

Variant	rs13217436
Chromosome Location	chr6:101256109-101256110
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:101253793..101256720-chr6:101258075..101261197,3	MCF-7	breast:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1099916	0.97[ASN][1000 genomes]
rs11155661	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11155673	0.80[ASN][1000 genomes]
rs11755579	0.89[CHB][hapmap]
rs11756783	0.93[ASN][1000 genomes]
rs11758174	0.89[CHB][hapmap]
rs11758891	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11967951	0.97[ASN][1000 genomes]
rs12525128	0.95[ASN][1000 genomes]
rs12525818	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12526352	0.93[ASN][1000 genomes]
rs12528607	1.00[ASN][1000 genomes]
rs13201267	0.92[ASN][1000 genomes]
rs17190683	0.93[ASN][1000 genomes]
rs17794439	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1813223	0.89[CHB][hapmap]
rs2101814	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2134044	0.91[ASN][1000 genomes]
rs3811078	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs3818233	0.91[ASN][1000 genomes]
rs4839789	0.80[ASN][1000 genomes]
rs4839792	0.82[ASN][1000 genomes]
rs4840153	0.92[ASN][1000 genomes]
rs4840155	0.82[ASN][1000 genomes]
rs4840157	0.81[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap]
rs62422070	1.00[ASN][1000 genomes]
rs6570969	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6570970	0.97[ASN][1000 genomes]
rs6919283	0.95[ASN][1000 genomes]
rs6927598	0.97[ASN][1000 genomes]
rs705586	0.99[ASN][1000 genomes]
rs723742	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs723743	0.97[ASN][1000 genomes]
rs7759463	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7768210	0.83[ASN][1000 genomes]
rs9322173	0.93[ASN][1000 genomes]
rs9322212	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs9322216	0.99[ASN][1000 genomes]
rs9373571	0.92[ASN][1000 genomes]
rs9373574	0.93[ASN][1000 genomes]
rs9373590	0.93[ASN][1000 genomes]
rs9377085	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9377193	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9377232	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9377234	1.00[ASN][1000 genomes]
rs9377235	0.99[ASN][1000 genomes]
rs9377241	0.87[CHB][hapmap]
rs9386257	0.82[ASN][1000 genomes]
rs9390502	0.89[ASN][1000 genomes]
rs9390626	0.93[ASN][1000 genomes]
rs9390675	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9390682	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9390693	0.97[ASN][1000 genomes]
rs9390695	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390698	0.81[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap]
rs9399641	0.93[ASN][1000 genomes]
rs9399656	0.93[ASN][1000 genomes]
rs9399688	0.93[ASN][1000 genomes]
rs9399694	0.83[ASN][1000 genomes]
rs9403962	0.93[ASN][1000 genomes]
rs9404022	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9404031	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9404033	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9404045	0.95[ASN][1000 genomes]
rs9404049	0.80[ASN][1000 genomes]
rs9404052	0.82[ASN][1000 genomes]
rs9404053	0.82[ASN][1000 genomes]
rs9404054	0.83[ASN][1000 genomes]
rs9485410	0.83[ASN][1000 genomes]
rs964223	0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs979122	0.94[CHB][hapmap];0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv886456	chr6:101049108-101277926	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1020692	chr6:101136992-101426071	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv604275	chr6:101158950-101277926	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv886457	chr6:101158950-101487473	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv1016353	chr6:101172705-101304041	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	nsv1019213	chr6:101225650-101623140	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
10	nsv538391	chr6:101225650-101623140	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101184400-101304600	Weak transcription	Hela-S3	cervix
2	chr6:101191400-101277000	Weak transcription	Esophagus	oesophagus
3	chr6:101212000-101276200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:101212000-101281400	Weak transcription	Aorta	Aorta
5	chr6:101213600-101281600	Weak transcription	Gastric	stomach
6	chr6:101214800-101281600	Weak transcription	Left Ventricle	heart
7	chr6:101215200-101256200	Weak transcription	Osteobl	bone
8	chr6:101215200-101263000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr6:101215200-101311400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:101215400-101258600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr6:101223000-101256800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:101226000-101281400	Weak transcription	HUVEC	blood vessel
13	chr6:101233600-101306600	Weak transcription	K562	blood
14	chr6:101233800-101265200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr6:101234600-101260000	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:101236800-101257800	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr6:101237000-101257400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:101238000-101296200	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr6:101238800-101257200	Weak transcription	HepG2	liver
20	chr6:101239800-101257800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr6:101240200-101257800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:101240400-101266000	Weak transcription	Pancreas	Pancrea
23	chr6:101240600-101277000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:101241600-101276200	Weak transcription	Fetal Intestine Large	intestine
25	chr6:101241800-101276200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr6:101242600-101262600	Weak transcription	Small Intestine	intestine
27	chr6:101242800-101256800	Weak transcription	Colon Smooth Muscle	Colon
28	chr6:101243200-101257000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr6:101243200-101276200	Weak transcription	Fetal Lung	lung
30	chr6:101243200-101277800	Weak transcription	NHEK	skin
31	chr6:101243400-101260400	Weak transcription	Fetal Intestine Small	intestine
32	chr6:101243800-101276200	Weak transcription	Thymus	Thymus
33	chr6:101244600-101268800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:101244600-101271000	Weak transcription	HSMMtube	muscle
35	chr6:101244600-101276200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr6:101244600-101296200	Weak transcription	NH-A	brain
37	chr6:101246000-101257400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
38	chr6:101247000-101263400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr6:101247600-101257400	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:101248200-101259800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr6:101249400-101298200	Weak transcription	A549	lung
42	chr6:101251400-101271200	Weak transcription	HSMM	muscle
43	chr6:101251600-101256600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:101251600-101260600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr6:101251800-101258200	Weak transcription	Adipose Nuclei	Adipose
46	chr6:101252200-101293800	Weak transcription	HMEC	breast
47	chr6:101252200-101295600	Weak transcription	NHDF-Ad	bronchial
48	chr6:101253200-101294800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:101253400-101257600	Weak transcription	GM12878-XiMat	blood
50	chr6:101253400-101257800	Weak transcription	Primary hematopoietic stem cells	blood

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