Variant report

Variant	rs7639138
Chromosome Location	chr3:28252755-28252756
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10510606	0.90[AFR][1000 genomes]
rs11129312	0.92[AFR][1000 genomes]
rs11129314	1.00[CHB][hapmap];0.85[AFR][1000 genomes]
rs11708368	0.87[AFR][1000 genomes]
rs11717202	0.87[AFR][1000 genomes]
rs11916111	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11916585	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11916606	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11916686	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918487	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11920536	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11920615	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11921526	0.91[AFR][1000 genomes]
rs11923769	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11926903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11927668	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12106806	1.00[CHB][hapmap]
rs12107183	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12107191	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12107556	1.00[CHB][hapmap]
rs12107565	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12485853	0.90[AFR][1000 genomes]
rs12497510	0.89[AFR][1000 genomes]
rs13069450	1.00[CHB][hapmap]
rs13069777	0.91[AFR][1000 genomes]
rs13074515	1.00[CHB][hapmap]
rs13085236	0.83[AFR][1000 genomes]
rs13092179	0.89[AFR][1000 genomes]
rs1606391	0.87[AFR][1000 genomes]
rs17021208	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17021215	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17021232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17021238	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35178864	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4680746	1.00[CHB][hapmap]
rs4680748	0.80[YRI][hapmap]
rs55940261	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56250178	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56687471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57267508	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57358658	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58886943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58899029	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60163502	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60163709	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61479857	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61548543	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61633201	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778650	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6780084	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6782956	0.87[AFR][1000 genomes]
rs6785465	0.91[AFR][1000 genomes]
rs6791708	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792110	0.87[AFR][1000 genomes]
rs6793933	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6794980	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6795634	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797580	1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6798101	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6798266	0.87[AFR][1000 genomes]
rs6802491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809163	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809706	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6809917	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72898235	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73822327	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73822555	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73823423	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73823424	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73823425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73823426	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73823427	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73823429	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73823432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73823433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73823434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610729	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7614914	1.00[ASN][1000 genomes]
rs7624015	1.00[CHB][hapmap]
rs7624111	1.00[CHB][hapmap]
rs7635045	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7638878	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]

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	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876648	chr3:28060456-28280965	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28251200-28253600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
2	chr3:28251400-28253400	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr3:28251400-28253600	Enhancers	Primary T cells from cord blood	blood
4	chr3:28251400-28253600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
5	chr3:28251600-28253600	Enhancers	Primary T helper cells PMA-I stimulated	--
6	chr3:28251600-28253600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr3:28251600-28253600	Enhancers	Dnd41	blood
8	chr3:28251600-28253800	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr3:28251600-28254000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:28251800-28253600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:28251800-28253600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:28252000-28253400	Enhancers	Primary T cells fromperipheralblood	blood
13	chr3:28252000-28253400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr3:28252000-28253800	Enhancers	Fetal Thymus	thymus
15	chr3:28252400-28252800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr3:28252400-28255800	Weak transcription	Thymus	Thymus
17	chr3:28252600-28252800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood

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