Variant report

Variant	rs12452566
Chromosome Location	chr17:46522533-46522534
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1027894	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11079819	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11079820	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1110921	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11649749	1.00[CEU][hapmap]
rs11650663	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11654288	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11655120	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11655137	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11656589	1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12449743	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12449855	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12451731	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12452277	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12452848	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12453784	1.00[ASN][1000 genomes]
rs16954446	1.00[CEU][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1973576	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28413063	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28436607	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28577013	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28613168	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35772538	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4132677	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56727666	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57559912	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59042469	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6504259	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7207949	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7208499	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7208758	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7212398	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7213936	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7214922	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7215843	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7217664	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7219155	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7221156	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7222296	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7222830	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7224936	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7225940	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7226288	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8065457	0.85[EUR][1000 genomes]
rs8069796	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8070322	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8071222	0.82[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8073065	1.00[CEU][hapmap]
rs8073671	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8073979	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8079940	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8081430	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8082050	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9747388	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9891857	1.00[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9895449	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9897131	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9902082	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9904494	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9906587	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9908329	1.00[JPT][hapmap]
rs9909089	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9910351	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9911663	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9911712	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9914121	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9914154	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9915778	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9916572	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9916667	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833469	chr17:46491849-46709406	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
2	esv2761960	chr17:46504489-46529846	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	esv3420538	chr17:46504944-46861553	Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	369 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46510600-46524000	Enhancers	Primary T cells fromperipheralblood	blood
2	chr17:46512600-46524200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr17:46513600-46523800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr17:46515400-46522800	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr17:46515800-46522600	Enhancers	K562	blood
6	chr17:46515800-46524000	Enhancers	Primary B cells from cord blood	blood
7	chr17:46518800-46526200	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr17:46519400-46525200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr17:46519600-46524000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
10	chr17:46520600-46530800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr17:46521200-46523600	Enhancers	Fetal Thymus	thymus
12	chr17:46521800-46522600	Active TSS	Rectal Mucosa Donor 29	rectum
13	chr17:46522000-46522600	Flanking Active TSS	Primary B cells from peripheral blood	blood
14	chr17:46522000-46522800	Flanking Active TSS	Primary T cells from cord blood	blood
15	chr17:46522000-46522800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr17:46522000-46522800	Enhancers	Pancreas	Pancrea
17	chr17:46522000-46522800	Enhancers	Spleen	Spleen
18	chr17:46522000-46523200	Enhancers	Thymus	Thymus
19	chr17:46522200-46525800	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr17:46522200-46526200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr17:46522400-46523000	Enhancers	GM12878-XiMat	blood
22	chr17:46522400-46523200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr17:46522400-46524200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr17:46522400-46525400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr17:46522400-46525600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr17:46522400-46526600	Enhancers	Primary T helper cells PMA-I stimulated	--

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