Variant report

Variant	rs6903535
Chromosome Location	chr6:28417222-28417223
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28416766..28418976-chr6:28420312..28423065,2	K562	blood:

Extended variants
information (count: 85 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1005127	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1054372	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[ASN][1000 genomes]
rs1124131	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11751693	0.88[ASN][1000 genomes]
rs11752496	0.86[ASN][1000 genomes]
rs11752919	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.96[MKK][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11754208	0.89[ASN][1000 genomes]
rs11755942	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11760133	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12697938	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[ASN][1000 genomes]
rs13190937	0.88[ASW][hapmap];0.81[MEX][hapmap]
rs13201726	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs13201753	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs13207208	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13210866	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13215476	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13215804	0.88[ASW][hapmap];0.85[MEX][hapmap]
rs1339898	0.85[ASN][1000 genomes]
rs13437294	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.89[ASN][1000 genomes]
rs1361385	1.00[CHB][hapmap];0.83[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1416918	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1558205	0.93[GIH][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1591913	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs16894021	0.88[ASN][1000 genomes]
rs16894060	1.00[CHB][hapmap];0.83[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs16894095	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs16894108	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2027361	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2041230	1.00[CHB][hapmap];0.83[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2071965	0.82[ASW][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs213228	0.88[GIH][hapmap];1.00[JPT][hapmap]
rs2531804	0.96[CEU][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28360638	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs34513104	0.89[ASN][1000 genomes]
rs34924864	0.81[ASN][1000 genomes]
rs35191424	0.89[ASN][1000 genomes]
rs35560946	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35599905	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs36018474	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3734563	1.00[CHB][hapmap];0.83[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3800328	0.94[ASW][hapmap];1.00[CHB][hapmap];0.80[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4254981	0.88[ASW][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4357130	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4580862	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4642462	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs66542396	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67211468	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6899389	0.88[ASW][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6899603	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6902687	0.81[CEU][hapmap]
rs6907950	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.92[MKK][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6908137	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6917130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6922169	0.88[ASW][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.90[MEX][hapmap];0.99[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6922374	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs6922429	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6927229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6928773	0.82[ASW][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.90[MEX][hapmap];1.00[YRI][hapmap]
rs6929825	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6939966	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs740621	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs740622	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7740351	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7749736	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7759191	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7764722	1.00[CHB][hapmap];0.83[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.86[MKK][hapmap];0.83[YRI][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7764737	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7773051	0.89[ASN][1000 genomes]
rs7775132	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9461455	0.82[ASN][1000 genomes]
rs9461456	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[ASN][1000 genomes]
rs9461458	1.00[CHB][hapmap];0.83[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9461459	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9468354	0.89[ASN][1000 genomes]
rs9468355	1.00[CHB][hapmap];0.83[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.89[ASN][1000 genomes]
rs9468357	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[ASN][1000 genomes]
rs9468360	0.87[ASN][1000 genomes]
rs9468361	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9468365	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9468366	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9468367	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9468368	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9468370	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.85[MEX][hapmap];0.88[MKK][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.91[ASN][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	nsv462666	chr6:28417222-28574415	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv601210	chr6:28417222-28574415	Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs6903535	ZNF323	cis	parietal	SCAN
rs6903535	ZSCAN31	cis	lung	GTEx
rs6903535	ZSCAN23	cis	cerebellum	SCAN
rs6903535	FAM65B	cis	cerebellum	SCAN
rs6903535	ZSCAN23	cis	parietal	SCAN
rs6903535	HIST1H2BN	cis	cerebellum	SCAN
rs6903535	AL022393.7	cis	Muscle Skeletal	GTEx
rs6903535	HLA-A	cis	multi-tissue	Pritchard
rs6903535	ZSCAN23	cis	Artery Tibial	GTEx
rs6903535	ZNF192	cis	cerebellum	SCAN
rs6903535	SLC17A1	cis	parietal	SCAN
rs6903535	ZNF187	cis	cerebellum	SCAN
rs6903535	ZSCAN23	cis	Adipose Subcutaneous	GTEx
rs6903535	HLA-H	cis	multi-tissue	Pritchard

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28416200-28417400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
2	chr6:28416200-28417600	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr6:28416400-28417600	Enhancers	Primary T cells from cord blood	blood
4	chr6:28416400-28417600	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr6:28416600-28418000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr6:28417200-28417600	Enhancers	Primary T cells fromperipheralblood	blood
7	chr6:28417200-28417600	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
8	chr6:28417200-28417600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--

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