Variant report

Variant	rs12665404
Chromosome Location	chr6:76556037-76556038
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs11963710	0.86[ASN][1000 genomes]
rs11964201	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11967411	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11968058	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11968226	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11969264	0.89[CHB][hapmap];0.91[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12660075	1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs12660330	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12660493	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12661973	0.83[ASN][1000 genomes]
rs12662248	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12662475	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12662565	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12662672	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12662718	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12662824	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12662879	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12663203	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12663535	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12664049	0.86[JPT][hapmap]
rs12664146	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12664721	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12664742	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13205059	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16879451	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2273858	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2295937	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3778009	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3798425	0.86[JPT][hapmap]
rs3798433	0.86[JPT][hapmap]
rs3798436	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3798445	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3798450	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3798451	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3798452	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3798453	1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3798456	1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3798457	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs56251027	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59710688	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60360183	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61620194	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67182025	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654751	0.83[ASN][1000 genomes]
rs72654752	0.85[ASN][1000 genomes]
rs72654753	0.87[ASN][1000 genomes]
rs72654754	0.87[ASN][1000 genomes]
rs72654755	0.86[ASN][1000 genomes]
rs72654756	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72654757	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72654758	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72654759	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72654760	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72654761	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72654762	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72654763	0.91[ASN][1000 genomes]
rs72654764	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654765	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654766	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654767	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654769	0.94[ASN][1000 genomes]
rs72654770	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654771	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654772	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654773	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654774	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654775	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654776	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654779	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654780	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72654781	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72654783	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72654784	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72654785	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72654786	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72654787	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72654788	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72654789	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72654790	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72654791	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72654792	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72654793	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72674543	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72674544	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72674545	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72674546	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73751021	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73751022	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73751024	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7761217	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9443187	1.00[CHB][hapmap];0.92[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9443191	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9443192	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9447543	1.00[CHB][hapmap];0.92[JPT][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9447544	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9447545	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9447546	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9447549	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9447552	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9447555	1.00[CHB][hapmap];0.92[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]

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	nsv1022428	chr6:76023118-76575620	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
2	nsv538312	chr6:76023118-76575620	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
3	nsv1019328	chr6:76154751-76604197	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
4	nsv538314	chr6:76154751-76604197	Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
5	nsv1021090	chr6:76306100-76759397	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv538318	chr6:76306100-76759397	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
7	nsv1032961	chr6:76343575-76788852	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv932201	chr6:76365548-77219650	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv1028340	chr6:76410921-76960225	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
10	nsv538319	chr6:76410921-76960225	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:76520200-76576400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr6:76521800-76571000	Weak transcription	Gastric	stomach
3	chr6:76522000-76558800	Weak transcription	Ovary	ovary
4	chr6:76522600-76559000	Weak transcription	Fetal Kidney	kidney
5	chr6:76523800-76569000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:76527200-76558800	Weak transcription	Small Intestine	intestine
7	chr6:76533200-76559400	Weak transcription	Colon Smooth Muscle	Colon
8	chr6:76534200-76572400	Weak transcription	Brain Anterior Caudate	brain
9	chr6:76534400-76556600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr6:76538200-76559200	Weak transcription	Pancreas	Pancrea
11	chr6:76539400-76572400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr6:76541000-76590600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr6:76541200-76572600	Weak transcription	HSMMtube	muscle
14	chr6:76541400-76558400	Weak transcription	Stomach Mucosa	stomach
15	chr6:76541400-76559200	Weak transcription	Osteobl	bone
16	chr6:76541400-76572400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr6:76541600-76558800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr6:76541600-76559400	Weak transcription	NH-A	brain
19	chr6:76541800-76558600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:76543000-76558800	Weak transcription	Left Ventricle	heart
21	chr6:76543000-76568800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:76543000-76569200	Weak transcription	Lung	lung
23	chr6:76543000-76615000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:76543200-76566600	Weak transcription	HMEC	breast
25	chr6:76543800-76559400	Weak transcription	NHDF-Ad	bronchial
26	chr6:76544000-76583200	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr6:76544200-76572600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:76544400-76558800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr6:76544400-76559200	Weak transcription	Fetal Stomach	stomach
30	chr6:76544400-76572600	Weak transcription	Aorta	Aorta
31	chr6:76544400-76572600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr6:76544400-76603800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr6:76545800-76566800	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:76547400-76562400	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr6:76547400-76572600	Weak transcription	Stomach Smooth Muscle	stomach
36	chr6:76551000-76565600	Weak transcription	Liver	Liver
37	chr6:76551200-76558800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr6:76551200-76566800	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr6:76551200-76567200	Weak transcription	Brain Hippocampus Middle	brain
40	chr6:76551200-76572600	Weak transcription	Placenta	Placenta
41	chr6:76551400-76559000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr6:76552000-76558800	Weak transcription	NHEK	skin
43	chr6:76552000-76566800	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr6:76552000-76571200	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr6:76552200-76560000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr6:76552200-76562000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr6:76552200-76562000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:76552200-76567400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr6:76552200-76569000	Weak transcription	Adipose Nuclei	Adipose
50	chr6:76552200-76572400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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