Variant report

Variant	rs3772542
Chromosome Location	chr3:105274780-105274781
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:105274336..105276377-chr3:105279991..105282080,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs11710166	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs11710857	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11713535	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11714275	0.84[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11714277	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs11715283	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11716035	0.84[CEU][hapmap];1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs11718405	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs11718457	1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11719817	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1898655	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1955135	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs2200473	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2399049	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2895300	0.82[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34029528	0.85[ASN][1000 genomes]
rs3772544	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772547	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs481177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs526297	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57986655	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59322590	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs598425	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61522255	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6771935	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs6771987	0.82[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6786815	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs6794273	0.82[CEU][hapmap];1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs73175407	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175433	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175435	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175442	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175449	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175451	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73175491	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73177465	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177470	0.85[ASN][1000 genomes]
rs73177478	0.85[ASN][1000 genomes]
rs73177489	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177494	0.85[ASN][1000 genomes]
rs73179378	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73179384	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181374	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181376	0.85[ASN][1000 genomes]
rs73181380	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181387	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181395	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181396	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181397	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181401	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73183103	0.85[ASN][1000 genomes]
rs73183108	0.88[ASN][1000 genomes]
rs73183112	0.88[ASN][1000 genomes]
rs73183114	0.88[ASN][1000 genomes]
rs73183115	0.88[ASN][1000 genomes]
rs73183185	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183186	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183187	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183188	0.88[ASN][1000 genomes]
rs73183198	0.88[ASN][1000 genomes]
rs73185114	0.88[ASN][1000 genomes]
rs73185115	0.88[ASN][1000 genomes]
rs73189021	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73189028	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73189034	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73189060	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192717	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192730	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73192733	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73192737	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73192751	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192754	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73192770	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs901280	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs978436	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS 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	6 gene(s)	inside rSNPs	diseases
2	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv829651	chr3:105203424-105402136	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv460811	chr3:105212993-105316769	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
5	nsv591240	chr3:105212993-105316769	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105221400-105300400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:105223800-105274800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:105237800-105275800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:105242000-105293600	Weak transcription	Lung	lung
5	chr3:105242400-105280400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:105244800-105275800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr3:105246600-105284400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr3:105248000-105281200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:105248400-105291200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:105249400-105278600	Weak transcription	Small Intestine	intestine
11	chr3:105249800-105284000	Weak transcription	Fetal Stomach	stomach
12	chr3:105249800-105285200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr3:105254800-105279800	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:105259400-105281200	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr3:105260800-105297000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr3:105260800-105299800	Weak transcription	Pancreas	Pancrea
17	chr3:105263000-105295400	Weak transcription	Brain Angular Gyrus	brain
18	chr3:105267600-105293800	Weak transcription	Brain Anterior Caudate	brain
19	chr3:105268400-105297800	Weak transcription	NHLF	lung
20	chr3:105270200-105275000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr3:105270600-105278200	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:105270800-105277600	Weak transcription	Fetal Heart	heart
23	chr3:105271600-105280600	Weak transcription	Fetal Intestine Large	intestine
24	chr3:105271600-105282600	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr3:105271600-105297000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr3:105271600-105303000	Weak transcription	Aorta	Aorta
27	chr3:105271800-105285800	Weak transcription	HUVEC	blood vessel
28	chr3:105272000-105291200	Weak transcription	Brain Substantia Nigra	brain
29	chr3:105272200-105312800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:105272400-105302800	Weak transcription	NHEK	skin
31	chr3:105272800-105275000	Enhancers	HSMM	muscle
32	chr3:105273000-105295200	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr3:105273200-105274800	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr3:105273200-105275800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr3:105273200-105276000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr3:105273200-105292200	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr3:105273200-105294000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr3:105273200-105295800	Weak transcription	Duodenum Mucosa	Duodenum
39	chr3:105273200-105303000	Weak transcription	HMEC	breast
40	chr3:105273400-105276000	Weak transcription	GM12878-XiMat	blood
41	chr3:105273400-105276400	Weak transcription	Stomach Smooth Muscle	stomach
42	chr3:105273400-105276400	Weak transcription	Osteobl	bone
43	chr3:105273400-105280800	Weak transcription	A549	lung
44	chr3:105273400-105285600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr3:105273400-105287800	Weak transcription	Primary B cells from peripheral blood	blood
46	chr3:105273400-105292800	Weak transcription	Ovary	ovary
47	chr3:105273400-105297600	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr3:105273400-105297600	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr3:105273400-105299800	Weak transcription	NHDF-Ad	bronchial
50	chr3:105273600-105274800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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