Variant report

Variant	rs1906141
Chromosome Location	chr3:113161519-113161520
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10511325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11914782	1.00[MEX][hapmap]
rs11917149	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917288	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919031	1.00[MEX][hapmap]
rs11919330	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920725	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11922598	0.83[JPT][hapmap]
rs11922838	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11923128	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11924109	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11926687	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11929418	1.00[MEX][hapmap]
rs1463639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1463641	1.00[MEX][hapmap]
rs1513288	0.85[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.81[EUR][1000 genomes]
rs16845106	0.91[JPT][hapmap]
rs16845109	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16860847	1.00[MEX][hapmap]
rs16860962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861014	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861023	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861077	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16861109	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.86[EUR][1000 genomes]
rs17256551	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17256752	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17322613	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1989359	1.00[CEU][hapmap];0.83[JPT][hapmap];0.86[EUR][1000 genomes]
rs2129431	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2129432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2271496	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs2291412	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306068	1.00[CEU][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2306070	1.00[CEU][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28472841	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35758075	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35812463	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732807	1.00[MEX][hapmap]
rs3732808	1.00[MEX][hapmap]
rs3732810	1.00[MEX][hapmap]
rs3814399	0.92[JPT][hapmap]
rs56685963	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56772417	0.82[ASN][1000 genomes]
rs57115529	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57164268	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57366942	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58905600	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58988763	0.82[ASN][1000 genomes]
rs59271111	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59493419	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59673391	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60940543	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61065093	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6438150	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438151	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6783691	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7610552	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7636986	1.00[MEX][hapmap]
rs7650500	1.00[MEX][hapmap]
rs7650771	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1004000	chr3:113116778-113513899	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113074400-113184400	Weak transcription	Hela-S3	cervix
2	chr3:113135200-113164600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:113136000-113176400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:113145800-113166000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:113145800-113176600	Weak transcription	Spleen	Spleen
6	chr3:113146000-113172000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:113146000-113191000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr3:113146200-113178600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr3:113146400-113165000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:113147000-113165600	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr3:113147400-113165400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:113147600-113162400	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr3:113147800-113178800	Weak transcription	HSMM	muscle
14	chr3:113156000-113179400	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr3:113159400-113163000	Strong transcription	A549	lung
16	chr3:113160200-113165000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr3:113160200-113167400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr3:113160200-113176000	Weak transcription	Gastric	stomach
19	chr3:113160200-113190000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:113160400-113162000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:113160400-113162000	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr3:113160400-113162200	Weak transcription	Primary B cells from peripheral blood	blood
23	chr3:113160400-113164600	Weak transcription	Liver	Liver
24	chr3:113160400-113165000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr3:113160400-113176000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr3:113160400-113186800	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr3:113160400-113188800	Weak transcription	Colonic Mucosa	Colon
28	chr3:113160400-113191200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr3:113160400-113192800	Weak transcription	Stomach Mucosa	stomach
30	chr3:113160600-113162000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:113160600-113162000	Weak transcription	Dnd41	blood
32	chr3:113160600-113162200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr3:113160600-113163000	Weak transcription	NHDF-Ad	bronchial
34	chr3:113160600-113165000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr3:113160600-113166200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr3:113160600-113168800	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr3:113160600-113170800	Weak transcription	Lung	lung
38	chr3:113160600-113170800	Weak transcription	Pancreas	Pancrea
39	chr3:113160600-113172200	Weak transcription	Left Ventricle	heart
40	chr3:113160600-113178600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr3:113160600-113179200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr3:113160600-113181600	Weak transcription	Esophagus	oesophagus
43	chr3:113160600-113188600	Weak transcription	Psoas Muscle	Psoas
44	chr3:113160600-113190600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr3:113160600-113203800	Weak transcription	Skeletal Muscle Male	skeletal muscle
46	chr3:113160800-113162000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr3:113160800-113162200	Weak transcription	Primary B cells from cord blood	blood
48	chr3:113160800-113162200	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr3:113160800-113163600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr3:113160800-113164000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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