Variant report

Variant	rs6940415
Chromosome Location	chr6:146009752-146009753
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr6:146009748-146010119	HepG2	liver:	n/a	n/a
2	FOSL2	chr6:146009649-146010066	A549	lung:	n/a	n/a
3	FOS	chr6:146009416-146010397	HUVEC	blood vessel:	n/a	chr6:146009793-146009804 chr6:146010118-146010127
4	FOS	chr6:146009576-146010107	MCF10A-Er-Src	breast:	n/a	chr6:146009793-146009804
5	FOS	chr6:146009610-146010026	MCF10A-Er-Src	breast:	n/a	chr6:146009793-146009804
6	FOS	chr6:146009612-146010021	MCF10A-Er-Src	breast:	n/a	chr6:146009793-146009804
7	FOSL1	chr6:146009528-146010054	HCT-116	colon:	n/a	n/a
8	TAF1	chr6:146009679-146010083	PFSK-1	brain:	n/a	n/a
9	FOXA1	chr6:146009737-146010081	ECC-1	luminal epithelium:	n/a	n/a
10	FOXA1	chr6:146009668-146010186	HepG2	liver:	n/a	n/a
11	FOS	chr6:146009591-146009939	MCF10A-Er-Src	breast:	n/a	chr6:146009793-146009804

Variant related genes	Relation type
EPM2A	TF binding region

Extended variants
information (count: 142 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs12111090	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs12111476	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1591698	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28479261	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28587324	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28829296	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs4896845	0.85[AFR][1000 genomes]
rs4896847	0.85[AFR][1000 genomes]
rs55658016	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55746945	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55813779	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55814547	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs55820518	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56116838	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56198487	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56282473	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56864636	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56950953	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56954340	0.85[AMR][1000 genomes]
rs57057101	0.85[AMR][1000 genomes]
rs57105639	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57646957	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs58588227	0.90[AFR][1000 genomes]
rs59135568	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs59557516	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs60162832	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60609437	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61014905	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs61041405	0.93[AFR][1000 genomes]
rs61121433	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6570702	0.98[AFR][1000 genomes]
rs6570704	0.83[AMR][1000 genomes]
rs6570707	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6570709	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6570710	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6570714	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6570720	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6900158	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6900565	0.85[AMR][1000 genomes]
rs6901219	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6901587	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6902273	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6902358	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6902952	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6904060	0.83[AMR][1000 genomes]
rs6908707	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6913497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6914491	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6918350	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6918739	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6919173	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6920248	0.92[AFR][1000 genomes]
rs6921110	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6925420	0.83[AMR][1000 genomes]
rs6927960	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6928780	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6930335	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6931280	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938895	0.85[AMR][1000 genomes]
rs6940256	0.85[AMR][1000 genomes]
rs6940752	0.83[AMR][1000 genomes]
rs6940930	0.83[AMR][1000 genomes]
rs73562628	0.83[AMR][1000 genomes]
rs73564486	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566113	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566115	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566121	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566126	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566139	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566140	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566157	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566168	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566721	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566724	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566728	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566742	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566747	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566751	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566754	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73566757	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73568127	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs73568130	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568133	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568134	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568138	0.90[AFR][1000 genomes]
rs73568145	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568148	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568151	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568185	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568188	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73568362	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73568366	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73568375	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73568383	0.83[AMR][1000 genomes]
rs73568384	0.83[AMR][1000 genomes]
rs73568389	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73568402	0.83[AMR][1000 genomes]
rs73570006	0.85[AMR][1000 genomes]
rs73570010	0.85[AMR][1000 genomes]
rs73570033	0.85[AMR][1000 genomes]
rs73570037	0.85[AMR][1000 genomes]
rs73572161	0.85[AMR][1000 genomes]
rs73577358	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73577363	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73577384	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73579444	0.83[AMR][1000 genomes]
rs73579478	0.96[AFR][1000 genomes]
rs73579483	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73579498	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73782053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73782068	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73784038	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73784067	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7738406	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7738822	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7738906	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7741139	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7744082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7745379	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7745722	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7749377	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7750382	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7751866	0.83[AMR][1000 genomes]
rs7753694	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7753832	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7754367	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7757137	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7758839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7759254	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7761251	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7761577	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7763273	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7768195	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7771112	0.84[AFR][1000 genomes]
rs7771653	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7772012	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7772550	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7773780	0.95[AFR][1000 genomes]
rs9718033	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs9766595	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9766596	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934064	chr6:146007547-146044233	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145980600-146010800	Weak transcription	Right Ventricle	heart
2	chr6:145995000-146010800	Weak transcription	Left Ventricle	heart
3	chr6:145995200-146013200	Weak transcription	Pancreas	Pancrea
4	chr6:145998800-146010800	Weak transcription	HSMMtube	muscle
5	chr6:145999000-146010800	Weak transcription	Psoas Muscle	Psoas
6	chr6:146000600-146010600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr6:146001800-146012200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr6:146003400-146010800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:146003400-146011600	Weak transcription	Brain Substantia Nigra	brain
10	chr6:146003400-146033600	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:146003600-146010800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr6:146003600-146010800	Weak transcription	Aorta	Aorta
13	chr6:146003600-146020600	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr6:146003600-146029400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:146003800-146009800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:146003800-146012200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr6:146003800-146012400	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr6:146003800-146026600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:146003800-146029600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr6:146003800-146029600	Weak transcription	Ovary	ovary
21	chr6:146006800-146014800	Weak transcription	Adipose Nuclei	Adipose
22	chr6:146006800-146050000	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:146007000-146022400	Weak transcription	Primary B cells from cord blood	blood
24	chr6:146007400-146043800	Weak transcription	Liver	Liver
25	chr6:146007600-146011000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:146007800-146013600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:146008400-146011200	Enhancers	Muscle Satellite Cultured Cells	--
28	chr6:146008600-146015600	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr6:146009000-146010600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:146009200-146010000	Enhancers	NHDF-Ad	bronchial
31	chr6:146009200-146011000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:146009200-146011200	Enhancers	HUVEC	blood vessel
33	chr6:146009400-146010000	Enhancers	HSMM	muscle
34	chr6:146009400-146010200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr6:146009400-146010400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr6:146009400-146010400	Enhancers	Osteobl	bone
37	chr6:146009600-146009800	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr6:146009600-146009800	Enhancers	Duodenum Smooth Muscle	Duodenum
39	chr6:146009600-146009800	Enhancers	Fetal Heart	heart
40	chr6:146009600-146009800	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr6:146009600-146010000	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr6:146009600-146010600	Weak transcription	NH-A	brain
43	chr6:146009600-146022400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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