Variant report

Variant	rs3749896
Chromosome Location	chr6:80912977-80912978
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11961345	0.93[CHB][hapmap];0.92[JPT][hapmap];0.81[YRI][hapmap]
rs11961389	0.93[CHB][hapmap];0.92[JPT][hapmap];0.93[YRI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11961412	0.93[CHB][hapmap];0.92[JPT][hapmap];0.81[YRI][hapmap]
rs11961506	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11961937	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11962441	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11963923	1.00[CEU][hapmap]
rs11967081	0.93[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];0.92[JPT][hapmap];0.88[LWK][hapmap];0.94[YRI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12110563	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324119	1.00[CHB][hapmap];0.92[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs3805893	1.00[CHB][hapmap];0.92[JPT][hapmap];0.81[YRI][hapmap]
rs3805914	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805915	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805916	0.85[JPT][hapmap]
rs3805918	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805923	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3812123	0.93[CHB][hapmap];0.88[CHD][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap];0.88[LWK][hapmap];0.94[YRI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3812124	0.93[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3812148	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3828750	0.93[CHB][hapmap];0.88[CHD][hapmap];0.82[GIH][hapmap];0.92[JPT][hapmap];0.88[LWK][hapmap];0.94[YRI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59155686	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59460144	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59516180	0.85[ASN][1000 genomes]
rs66486409	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73477975	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs73477981	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73477985	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73479907	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73479909	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73479918	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73479932	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73479950	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73479953	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73479959	0.90[EUR][1000 genomes]
rs73479968	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73479980	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73482011	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73482029	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73482038	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs742834	0.92[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs806840	0.93[CHB][hapmap]
rs9343974	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830708	chr6:80844283-80996876	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1034096	chr6:80856135-81150170	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv886309	chr6:80880138-80959885	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv886310	chr6:80880138-81025879	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv932996	chr6:80880896-81134991	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv497995	chr6:80883701-81134991	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1033452	chr6:80888667-81000213	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80842200-80914200	Weak transcription	Primary B cells from cord blood	blood
2	chr6:80878000-80921000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:80878600-80916000	Weak transcription	Adipose Nuclei	Adipose
4	chr6:80878800-80914200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:80880600-80914200	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr6:80882400-80935400	Weak transcription	Dnd41	blood
7	chr6:80883800-80913200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr6:80885800-80919000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:80891600-80931200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr6:80892200-80913400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:80896200-80921000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:80896400-80927400	Weak transcription	Aorta	Aorta
13	chr6:80896400-80943800	Weak transcription	Right Ventricle	heart
14	chr6:80897800-80918800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:80904200-80921800	Weak transcription	Fetal Thymus	thymus
16	chr6:80904400-80913000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:80904400-80916200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr6:80905000-80919000	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr6:80905600-80923800	Weak transcription	Small Intestine	intestine
20	chr6:80907400-80919800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr6:80907400-80920400	Weak transcription	Gastric	stomach
22	chr6:80907600-80914000	Weak transcription	Ovary	ovary
23	chr6:80907600-80915000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr6:80907600-80916800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:80907600-80917000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr6:80907600-80920400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:80907600-80920400	Weak transcription	NHDF-Ad	bronchial
28	chr6:80907800-80913200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:80907800-80915800	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr6:80907800-80919800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr6:80907800-80920400	Weak transcription	Stomach Smooth Muscle	stomach
32	chr6:80907800-80920600	Weak transcription	HSMM	muscle
33	chr6:80907800-80920800	Weak transcription	Pancreas	Pancrea
34	chr6:80907800-80921000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr6:80908000-80920400	Weak transcription	Fetal Muscle Leg	muscle
36	chr6:80908000-80920400	Weak transcription	HSMMtube	muscle
37	chr6:80908000-80936200	Weak transcription	Fetal Lung	lung
38	chr6:80909000-80920400	Weak transcription	Left Ventricle	heart
39	chr6:80909000-80920400	Weak transcription	Psoas Muscle	Psoas
40	chr6:80909000-80940200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr6:80909400-80915200	Weak transcription	Osteobl	bone
42	chr6:80910000-80933400	Weak transcription	Esophagus	oesophagus
43	chr6:80910600-80914800	Strong transcription	Liver	Liver
44	chr6:80910800-80913600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr6:80911200-80924200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr6:80911400-80919400	Weak transcription	GM12878-XiMat	blood
47	chr6:80911400-80920000	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr6:80911800-80935200	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr6:80912000-80921000	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr6:80912600-80913400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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