Variant report

Variant	rs2619552
Chromosome Location	chr6:15638795-15638796
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	chr6:15638147..15639821-chr6:15640397..15642990,2	MCF-7	breast:
2	chr6:15631159..15634142-chr6:15637366..15640748,3	K562	blood:

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs1018381	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1018382	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1040410	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10949305	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11752196	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752598	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11753919	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11755055	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.84[MEX][hapmap];0.90[MKK][hapmap];0.92[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757499	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759609	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437303	0.88[EUR][1000 genomes]
rs16876671	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1997679	1.00[ASN][1000 genomes]
rs2205852	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2237110	0.82[MEX][hapmap]
rs2619516	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619519	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619521	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs2619522	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[ASN][1000 genomes]
rs2619524	0.81[ASN][1000 genomes]
rs2619525	0.81[ASN][1000 genomes]
rs2619526	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619528	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs2619529	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619530	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2619533	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2619534	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2619535	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619540	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619541	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619544	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619545	0.82[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[ASN][1000 genomes]
rs2619546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619547	0.81[ASN][1000 genomes]
rs2619548	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743548	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743549	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743550	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743551	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2743552	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2743553	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2743853	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743854	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743856	0.81[ASN][1000 genomes]
rs2743857	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2743858	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743859	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743860	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743864	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743866	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743867	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743870	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743871	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743872	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778651	0.82[CEU][hapmap];0.82[MEX][hapmap]
rs6459408	1.00[ASN][1000 genomes]
rs6903159	1.00[ASN][1000 genomes]
rs734129	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.92[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs760761	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs7752070	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756793	0.85[CEU][hapmap]
rs7770921	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs875463	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.92[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9296975	0.82[CEU][hapmap]
rs9296976	0.84[EUR][1000 genomes]
rs9296977	0.82[EUR][1000 genomes]
rs9296978	0.88[EUR][1000 genomes]
rs9296979	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296980	0.90[EUR][1000 genomes]
rs9296981	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9296984	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9296985	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.92[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296987	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296988	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464793	0.86[EUR][1000 genomes]
rs9464794	0.88[EUR][1000 genomes]
rs9464795	0.84[EUR][1000 genomes]
rs9464797	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464801	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464802	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464805	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464807	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476835	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476836	0.86[EUR][1000 genomes]
rs9476837	0.86[ASW][hapmap];1.00[CEU][hapmap];0.82[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.92[TSI][hapmap];0.88[YRI][hapmap];0.88[EUR][1000 genomes]
rs9476838	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9476839	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9476840	0.94[EUR][1000 genomes]
rs9476841	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9476842	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476844	0.82[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476845	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476846	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476849	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476854	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476858	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.92[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476859	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476860	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476863	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476865	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476866	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476867	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476868	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476869	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476883	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2755670	chr6:15624762-15736008	Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15597000-15641600	Weak transcription	Spleen	Spleen
2	chr6:15600000-15660400	Weak transcription	Hela-S3	cervix
3	chr6:15610600-15640200	Weak transcription	Aorta	Aorta
4	chr6:15611800-15641800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr6:15614800-15641600	Weak transcription	Lung	lung
6	chr6:15615000-15652600	Weak transcription	Colonic Mucosa	Colon
7	chr6:15615200-15641000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr6:15615200-15642200	Weak transcription	Thymus	Thymus
9	chr6:15615200-15662200	Weak transcription	Gastric	stomach
10	chr6:15615400-15643000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr6:15615600-15639000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr6:15616800-15662000	Weak transcription	Placenta	Placenta
13	chr6:15616800-15662200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:15621800-15662200	Weak transcription	Pancreas	Pancrea
15	chr6:15622200-15638800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr6:15622200-15641000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:15622200-15641600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:15622200-15641800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:15622200-15643600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr6:15622200-15649200	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr6:15623600-15641000	Weak transcription	Brain Hippocampus Middle	brain
22	chr6:15623600-15643200	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr6:15623800-15638800	Weak transcription	Fetal Muscle Leg	muscle
24	chr6:15623800-15639000	Weak transcription	Left Ventricle	heart
25	chr6:15623800-15662000	Weak transcription	Stomach Smooth Muscle	stomach
26	chr6:15624400-15641600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:15624400-15642000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr6:15626400-15639000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:15626400-15641000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr6:15628600-15662000	Weak transcription	NHLF	lung
31	chr6:15629400-15640400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr6:15629400-15641600	Weak transcription	Fetal Stomach	stomach
33	chr6:15629400-15641800	Weak transcription	HMEC	breast
34	chr6:15629400-15641800	Weak transcription	NHEK	skin
35	chr6:15629400-15642200	Weak transcription	NHDF-Ad	bronchial
36	chr6:15629400-15642600	Weak transcription	Fetal Lung	lung
37	chr6:15629400-15649200	Weak transcription	HSMM	muscle
38	chr6:15629400-15650400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr6:15629600-15654000	Weak transcription	Osteobl	bone
40	chr6:15629600-15657000	Weak transcription	K562	blood
41	chr6:15629600-15661800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr6:15630200-15642200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr6:15630200-15642800	Weak transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:15630400-15643000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:15630800-15638800	Weak transcription	GM12878-XiMat	blood
46	chr6:15630800-15643600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr6:15632200-15643600	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr6:15632200-15662000	Weak transcription	Duodenum Mucosa	Duodenum
49	chr6:15632400-15638800	Weak transcription	Liver	Liver
50	chr6:15632400-15639000	Weak transcription	Fetal Intestine Small	intestine

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