Variant report

Variant	rs2870415
Chromosome Location	chr3:150924762-150924763
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10513385	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs10513386	0.81[ASW][hapmap];1.00[GIH][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes]
rs12106682	0.89[ASW][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs12631155	1.00[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12633262	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12633553	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12638293	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1431494	1.00[ASW][hapmap];1.00[GIH][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs1431495	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs16863151	1.00[JPT][hapmap]
rs16863173	1.00[EUR][1000 genomes]
rs16863204	0.89[ASW][hapmap]
rs16863208	0.81[ASW][hapmap];1.00[GIH][hapmap]
rs16863219	0.89[ASW][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs16863223	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs16863229	1.00[ASW][hapmap];1.00[GIH][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs16863238	1.00[GIH][hapmap]
rs16863248	1.00[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16863250	0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2060080	0.90[ASN][1000 genomes]
rs2870413	1.00[ASW][hapmap];0.83[LWK][hapmap];0.97[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs2870414	0.96[AFR][1000 genomes]
rs3732755	0.81[ASW][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes]
rs3773614	1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs3773618	0.90[ASN][1000 genomes]
rs3821666	1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3960212	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41526246	0.89[ASW][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41526349	0.89[ASW][hapmap];1.00[MEX][hapmap];0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs4330297	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs58321514	1.00[EUR][1000 genomes]
rs60620665	1.00[EUR][1000 genomes]
rs60816259	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60966250	1.00[EUR][1000 genomes]
rs6440723	1.00[ASW][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6440725	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66725169	0.96[AFR][1000 genomes]
rs6767615	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67740545	0.96[AFR][1000 genomes]
rs6774659	1.00[EUR][1000 genomes]
rs6776934	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6777211	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6787551	1.00[EUR][1000 genomes]
rs6790244	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6790349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6794447	1.00[EUR][1000 genomes]
rs73009177	1.00[EUR][1000 genomes]
rs73012977	1.00[EUR][1000 genomes]
rs73012978	1.00[EUR][1000 genomes]
rs73012986	1.00[EUR][1000 genomes]
rs73012988	1.00[EUR][1000 genomes]
rs73012992	1.00[EUR][1000 genomes]
rs73013000	1.00[EUR][1000 genomes]
rs73014806	1.00[EUR][1000 genomes]
rs73014871	1.00[EUR][1000 genomes]
rs73014873	1.00[EUR][1000 genomes]
rs73016712	1.00[EUR][1000 genomes]
rs73016789	1.00[EUR][1000 genomes]
rs73018614	0.81[AFR][1000 genomes]
rs73018620	1.00[EUR][1000 genomes]
rs73018621	0.81[AFR][1000 genomes]
rs73018622	0.81[AFR][1000 genomes]
rs73018640	0.82[AFR][1000 genomes]
rs73018641	0.82[AFR][1000 genomes]
rs73019085	0.87[AFR][1000 genomes]
rs73019091	0.81[AFR][1000 genomes]
rs73019093	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73019099	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021108	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021116	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73021122	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73021129	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73021144	1.00[EUR][1000 genomes]
rs7618087	1.00[EUR][1000 genomes]
rs7638986	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs7650959	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs7653225	0.89[YRI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9917673	0.81[ASW][hapmap];0.85[YRI][hapmap]

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	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv10341	chr3:150921044-150924796	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
2	chr3:150896200-150927800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:150908800-150933200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:150911800-150928600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:150917000-150931600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:150918000-150924800	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr3:150919800-150933400	Weak transcription	Primary B cells from cord blood	blood
8	chr3:150921000-150924800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:150921000-150927400	Weak transcription	Thymus	Thymus
10	chr3:150921400-150927200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr3:150921400-150929200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr3:150922400-150925400	Enhancers	Primary T cells fromperipheralblood	blood
13	chr3:150923000-150925800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr3:150923000-150927400	Weak transcription	HepG2	liver
15	chr3:150923000-150928400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:150923200-150929200	Enhancers	Primary T cells from cord blood	blood
17	chr3:150923400-150926000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr3:150923400-150926000	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr3:150923600-150925600	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr3:150923600-150926000	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr3:150923600-150928600	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr3:150923800-150925200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr3:150923800-150925800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
24	chr3:150923800-150926600	Weak transcription	Fetal Thymus	thymus
25	chr3:150923800-150928000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:150923800-150928400	Weak transcription	Brain Germinal Matrix	brain
27	chr3:150923800-150928600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr3:150923800-150928600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr3:150924000-150925600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr3:150924200-150925200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr3:150924600-150925200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr3:150924600-150925600	Enhancers	Primary T killer naive cells fromperipheralblood	blood

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