Variant report

Variant	rs7651446
Chromosome Location	chr3:156406997-156406998
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156391939..156394186-chr3:156406750..156409428,2	K562	blood:
2	chr3:156254995..156257951-chr3:156406375..156408006,2	K562	blood:

Variant related genes	Relation type
ENSG00000243926	Chromatin interaction
ENSG00000163659	Chromatin interaction

Extended variants
information (count: 160 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:158)

rs_ID	r²[population]
rs13097957	1.00[MEX][hapmap]
rs13323819	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs1397191	0.89[YRI][hapmap]
rs16826731	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs17380639	0.90[EUR][1000 genomes]
rs17381024	0.90[EUR][1000 genomes]
rs17381930	0.83[EUR][1000 genomes]
rs17382208	0.83[EUR][1000 genomes]
rs17440227	0.90[EUR][1000 genomes]
rs17440656	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs17440944	1.00[CEU][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs1991618	0.85[MKK][hapmap]
rs2665390	0.82[CEU][hapmap]
rs344008	0.81[ASW][hapmap];0.82[CEU][hapmap];1.00[MEX][hapmap]
rs62273860	0.85[EUR][1000 genomes]
rs62273861	0.85[EUR][1000 genomes]
rs62273862	0.85[EUR][1000 genomes]
rs62273895	0.85[EUR][1000 genomes]
rs62273896	0.85[EUR][1000 genomes]
rs62273897	0.85[EUR][1000 genomes]
rs62273898	0.80[EUR][1000 genomes]
rs62273899	0.85[EUR][1000 genomes]
rs62273900	0.85[EUR][1000 genomes]
rs62273902	0.85[EUR][1000 genomes]
rs62273904	0.85[EUR][1000 genomes]
rs62273905	0.85[EUR][1000 genomes]
rs62273906	0.83[EUR][1000 genomes]
rs62273907	0.85[EUR][1000 genomes]
rs62273908	0.85[EUR][1000 genomes]
rs62273909	0.83[EUR][1000 genomes]
rs62273910	0.85[EUR][1000 genomes]
rs62273912	0.85[EUR][1000 genomes]
rs62273913	0.85[EUR][1000 genomes]
rs62273914	0.85[EUR][1000 genomes]
rs62273915	0.85[EUR][1000 genomes]
rs62273916	0.85[EUR][1000 genomes]
rs62273917	0.85[EUR][1000 genomes]
rs62273918	0.85[EUR][1000 genomes]
rs62273919	0.85[EUR][1000 genomes]
rs62273920	0.85[EUR][1000 genomes]
rs62273921	0.83[EUR][1000 genomes]
rs62273922	0.83[EUR][1000 genomes]
rs62273955	0.83[EUR][1000 genomes]
rs62273956	0.83[EUR][1000 genomes]
rs62273958	0.83[EUR][1000 genomes]
rs62273959	0.83[EUR][1000 genomes]
rs62274040	1.00[EUR][1000 genomes]
rs62274041	1.00[EUR][1000 genomes]
rs62274042	1.00[EUR][1000 genomes]
rs62274046	0.81[EUR][1000 genomes]
rs62274047	0.88[EUR][1000 genomes]
rs62275160	0.83[EUR][1000 genomes]
rs62275163	0.83[EUR][1000 genomes]
rs62275164	0.83[EUR][1000 genomes]
rs62275165	0.80[EUR][1000 genomes]
rs62275166	0.83[EUR][1000 genomes]
rs62275170	0.80[EUR][1000 genomes]
rs62275171	0.83[EUR][1000 genomes]
rs62275174	0.83[EUR][1000 genomes]
rs62275175	0.83[EUR][1000 genomes]
rs62275176	0.83[EUR][1000 genomes]
rs62275177	0.83[EUR][1000 genomes]
rs62275178	0.83[EUR][1000 genomes]
rs62275179	0.83[EUR][1000 genomes]
rs62275180	0.83[EUR][1000 genomes]
rs62275182	0.83[EUR][1000 genomes]
rs62275185	0.83[EUR][1000 genomes]
rs62275186	0.83[EUR][1000 genomes]
rs62275189	0.83[EUR][1000 genomes]
rs62275190	0.83[EUR][1000 genomes]
rs62275238	0.83[EUR][1000 genomes]
rs62275243	0.83[EUR][1000 genomes]
rs62275244	0.83[EUR][1000 genomes]
rs62275245	0.83[EUR][1000 genomes]
rs62275246	0.83[EUR][1000 genomes]
rs62275247	0.83[EUR][1000 genomes]
rs62275248	0.83[EUR][1000 genomes]
rs62275249	0.83[EUR][1000 genomes]
rs62275250	0.83[EUR][1000 genomes]
rs62275251	0.83[EUR][1000 genomes]
rs62275252	0.83[EUR][1000 genomes]
rs62275575	0.85[EUR][1000 genomes]
rs62275576	0.85[EUR][1000 genomes]
rs62275577	0.85[EUR][1000 genomes]
rs62275580	0.88[EUR][1000 genomes]
rs62275581	0.88[EUR][1000 genomes]
rs62275646	0.88[EUR][1000 genomes]
rs62275647	0.88[EUR][1000 genomes]
rs62275648	0.88[EUR][1000 genomes]
rs62275650	0.88[EUR][1000 genomes]
rs62275651	0.95[EUR][1000 genomes]
rs62275653	0.95[EUR][1000 genomes]
rs62276613	0.95[EUR][1000 genomes]
rs62276615	0.95[EUR][1000 genomes]
rs62276618	1.00[EUR][1000 genomes]
rs62276619	1.00[EUR][1000 genomes]
rs62276620	1.00[EUR][1000 genomes]
rs62276621	1.00[EUR][1000 genomes]
rs62276622	1.00[EUR][1000 genomes]
rs62276623	1.00[EUR][1000 genomes]
rs62276624	1.00[EUR][1000 genomes]
rs62276625	1.00[EUR][1000 genomes]
rs62277073	1.00[EUR][1000 genomes]
rs62277074	1.00[EUR][1000 genomes]
rs62277075	1.00[EUR][1000 genomes]
rs62277076	1.00[EUR][1000 genomes]
rs62277077	1.00[EUR][1000 genomes]
rs62277078	1.00[EUR][1000 genomes]
rs62277079	1.00[EUR][1000 genomes]
rs62277080	1.00[EUR][1000 genomes]
rs62277081	1.00[EUR][1000 genomes]
rs62277084	0.95[EUR][1000 genomes]
rs62277085	0.90[EUR][1000 genomes]
rs62277086	0.90[EUR][1000 genomes]
rs62277087	0.90[EUR][1000 genomes]
rs62277088	0.90[EUR][1000 genomes]
rs62277089	0.90[EUR][1000 genomes]
rs62277090	0.90[EUR][1000 genomes]
rs62277091	0.90[EUR][1000 genomes]
rs62277092	0.90[EUR][1000 genomes]
rs62277093	0.85[EUR][1000 genomes]
rs62277096	0.90[EUR][1000 genomes]
rs62277097	0.90[EUR][1000 genomes]
rs62277099	0.90[EUR][1000 genomes]
rs62277140	0.90[EUR][1000 genomes]
rs62277141	0.90[EUR][1000 genomes]
rs62277142	0.90[EUR][1000 genomes]
rs62277143	0.90[EUR][1000 genomes]
rs62277144	0.90[EUR][1000 genomes]
rs62277145	0.90[EUR][1000 genomes]
rs62277146	0.90[EUR][1000 genomes]
rs62277147	0.90[EUR][1000 genomes]
rs62277148	0.90[EUR][1000 genomes]
rs62277150	0.85[EUR][1000 genomes]
rs62277153	0.85[EUR][1000 genomes]
rs62277155	0.85[EUR][1000 genomes]
rs62277156	0.85[EUR][1000 genomes]
rs62277157	0.85[EUR][1000 genomes]
rs62277158	0.85[EUR][1000 genomes]
rs62277391	1.00[EUR][1000 genomes]
rs62277392	1.00[EUR][1000 genomes]
rs62277398	1.00[EUR][1000 genomes]
rs62278060	0.85[EUR][1000 genomes]
rs62278061	0.85[EUR][1000 genomes]
rs62278062	0.85[EUR][1000 genomes]
rs62278064	0.85[EUR][1000 genomes]
rs62278065	0.80[EUR][1000 genomes]
rs62278066	0.83[EUR][1000 genomes]
rs6797924	0.86[LWK][hapmap];0.96[MKK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes]
rs73873709	0.83[AFR][1000 genomes]
rs73873711	0.83[AFR][1000 genomes]
rs7609776	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs7610539	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs7620352	0.83[AFR][1000 genomes]
rs7620432	0.93[LWK][hapmap];0.89[MKK][hapmap];0.84[YRI][hapmap]
rs9829961	0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs9834930	0.83[AFR][1000 genomes]
rs9883478	0.93[LWK][hapmap];0.92[MKK][hapmap];0.89[YRI][hapmap];0.83[AFR][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	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Ovarian cancer	23535730	GWAS catalog

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156394000-156436000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:156394200-156412600	Weak transcription	Placenta	Placenta
3	chr3:156394400-156411800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:156395600-156438600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:156395800-156408600	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:156396200-156407400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:156396400-156407400	Weak transcription	Esophagus	oesophagus
8	chr3:156396400-156407400	Weak transcription	Spleen	Spleen
9	chr3:156396400-156408800	Weak transcription	Colonic Mucosa	Colon
10	chr3:156396400-156413000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr3:156396400-156414400	Weak transcription	Thymus	Thymus
12	chr3:156396400-156424800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr3:156396600-156441000	Weak transcription	Lung	lung
14	chr3:156397800-156413000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr3:156398400-156408800	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr3:156398600-156409600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr3:156399200-156407400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr3:156399200-156407400	Weak transcription	Fetal Intestine Large	intestine
19	chr3:156399200-156412400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr3:156399600-156407400	Weak transcription	Fetal Brain Female	brain
21	chr3:156399800-156407400	Weak transcription	Gastric	stomach
22	chr3:156399800-156408600	Genic enhancers	NHEK	skin
23	chr3:156399800-156410200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
24	chr3:156399800-156411200	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr3:156399800-156411400	Weak transcription	Fetal Thymus	thymus
26	chr3:156399800-156411800	Enhancers	Brain Hippocampus Middle	brain
27	chr3:156399800-156413200	Weak transcription	Fetal Muscle Leg	muscle
28	chr3:156400000-156412200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr3:156400400-156411600	Weak transcription	Primary hematopoietic stem cells	blood
30	chr3:156401600-156409400	Enhancers	Primary T killer memory cells from peripheral blood	blood
31	chr3:156402600-156407400	Weak transcription	Right Atrium	heart
32	chr3:156402600-156410800	Enhancers	Liver	Liver
33	chr3:156402800-156409400	Enhancers	Fetal Heart	heart
34	chr3:156403400-156407400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr3:156403400-156409200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr3:156403400-156421800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr3:156403600-156408000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr3:156403600-156409200	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr3:156403600-156412000	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr3:156403800-156407400	Weak transcription	Pancreas	Pancrea
41	chr3:156403800-156407400	Weak transcription	Right Ventricle	heart
42	chr3:156403800-156408400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr3:156403800-156408800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr3:156403800-156409600	Genic enhancers	HMEC	breast
45	chr3:156403800-156412200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr3:156403800-156413800	Weak transcription	Stomach Smooth Muscle	stomach
47	chr3:156404000-156407000	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:156404000-156407000	Enhancers	Duodenum Mucosa	Duodenum
49	chr3:156404000-156407000	Weak transcription	Dnd41	blood
50	chr3:156404000-156407400	Enhancers	Rectal Smooth Muscle	rectum

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