Variant report

Variant	rs1211246
Chromosome Location	chr11:63015319-63015320
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	chr11:62990724..62992823-chr11:63013955..63016825,2	MCF-7	breast:

Extended variants
information (count: 187 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:178)

rs_ID	r²[population]
rs10750995	0.94[ASN][1000 genomes]
rs10792403	0.94[ASN][1000 genomes]
rs10792404	0.94[ASN][1000 genomes]
rs10792406	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10897380	0.94[ASN][1000 genomes]
rs10897381	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10897382	0.94[ASN][1000 genomes]
rs10897383	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10897384	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10897387	0.90[ASN][1000 genomes]
rs10897390	0.96[ASN][1000 genomes]
rs10897392	0.96[ASN][1000 genomes]
rs10897396	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10897397	0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs10897399	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10897407	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1122524	0.90[ASN][1000 genomes]
rs11231391	0.94[ASN][1000 genomes]
rs11231392	0.94[ASN][1000 genomes]
rs11231394	0.94[ASN][1000 genomes]
rs11231395	0.93[ASN][1000 genomes]
rs11231396	0.94[ASN][1000 genomes]
rs11231397	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11231403	0.94[ASN][1000 genomes]
rs11231406	0.83[ASN][1000 genomes]
rs11231409	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11231410	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11231411	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11231412	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11231413	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11231414	0.97[ASN][1000 genomes]
rs11231417	0.96[ASN][1000 genomes]
rs11231418	0.96[ASN][1000 genomes]
rs11231419	0.96[ASN][1000 genomes]
rs11494212	0.91[ASN][1000 genomes]
rs1152244	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1152245	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1152246	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11524468	0.96[ASN][1000 genomes]
rs11524903	0.97[ASN][1000 genomes]
rs11537206	0.93[ASN][1000 genomes]
rs11559570	0.86[ASN][1000 genomes]
rs1193642	0.97[ASN][1000 genomes]
rs1193645	0.97[ASN][1000 genomes]
rs1193646	0.97[ASN][1000 genomes]
rs1193718	0.91[ASN][1000 genomes]
rs1193726	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1193729	0.89[ASN][1000 genomes]
rs1193733	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1193772	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1193774	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1193775	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1193789	0.90[ASN][1000 genomes]
rs1193856	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1193891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1193892	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1193893	0.97[ASN][1000 genomes]
rs1193894	0.97[ASN][1000 genomes]
rs1193896	0.96[ASN][1000 genomes]
rs1193897	0.94[ASN][1000 genomes]
rs1193904	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1193905	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1201559	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1205166	0.90[ASN][1000 genomes]
rs1205186	0.90[ASN][1000 genomes]
rs1211550	0.95[ASN][1000 genomes]
rs12224010	0.94[ASN][1000 genomes]
rs12225186	0.94[ASN][1000 genomes]
rs12416737	0.97[ASN][1000 genomes]
rs12417255	0.97[ASN][1000 genomes]
rs12417508	0.96[ASN][1000 genomes]
rs12418081	0.97[ASN][1000 genomes]
rs12574223	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12574967	0.97[ASN][1000 genomes]
rs12576556	0.96[ASN][1000 genomes]
rs12577849	0.96[ASN][1000 genomes]
rs1300795	0.97[ASN][1000 genomes]
rs1300796	0.96[ASN][1000 genomes]
rs1300798	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1308010	0.96[ASN][1000 genomes]
rs1404608	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1525064	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1525071	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1608760	0.90[ASN][1000 genomes]
rs1723213	0.91[ASN][1000 genomes]
rs1723219	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1783634	0.91[ASN][1000 genomes]
rs1783652	0.96[ASN][1000 genomes]
rs1783654	0.97[ASN][1000 genomes]
rs1789327	0.89[ASN][1000 genomes]
rs1789334	0.91[ASN][1000 genomes]
rs1790218	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1830026	0.96[ASN][1000 genomes]
rs1852067	0.96[ASN][1000 genomes]
rs1939739	0.94[ASN][1000 genomes]
rs1944086	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1944091	0.97[ASN][1000 genomes]
rs1944092	0.82[ASN][1000 genomes]
rs1997038	0.96[ASN][1000 genomes]
rs2155316	0.94[ASN][1000 genomes]
rs2186719	0.94[ASN][1000 genomes]
rs2186721	0.94[ASN][1000 genomes]
rs2222591	0.94[ASN][1000 genomes]
rs2226866	0.82[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs2317089	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2317090	0.94[ASN][1000 genomes]
rs2317093	0.94[ASN][1000 genomes]
rs2510590	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2510591	0.82[ASN][1000 genomes]
rs3891629	0.90[CHB][hapmap];0.94[ASN][1000 genomes]
rs3915142	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3937020	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4000269	0.95[ASN][1000 genomes]
rs4060975	0.85[ASN][1000 genomes]
rs4258381	0.96[ASN][1000 genomes]
rs4315076	0.97[ASN][1000 genomes]
rs4337047	0.94[ASN][1000 genomes]
rs4344494	0.96[ASN][1000 genomes]
rs4445638	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs474096	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs474191	0.91[ASN][1000 genomes]
rs474815	0.87[ASN][1000 genomes]
rs474874	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs483012	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs486460	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs494608	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4963252	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4963380	0.88[ASN][1000 genomes]
rs4963381	0.88[ASN][1000 genomes]
rs4963385	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs505653	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs513338	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs515213	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs516536	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs524724	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs527027	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs527869	0.90[ASN][1000 genomes]
rs532085	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs534799	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs537194	0.82[ASN][1000 genomes]
rs540141	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs543429	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs548885	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs549144	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs554430	0.90[ASN][1000 genomes]
rs556730	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs557658	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs557879	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55963399	0.94[ASN][1000 genomes]
rs56030503	0.89[ASN][1000 genomes]
rs565787	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs572017	0.91[ASN][1000 genomes]
rs575009	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs576641	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58347848	0.92[ASN][1000 genomes]
rs58673340	0.97[ASN][1000 genomes]
rs59019924	0.95[ASN][1000 genomes]
rs59626188	0.97[ASN][1000 genomes]
rs60090619	0.97[ASN][1000 genomes]
rs60477987	0.97[ASN][1000 genomes]
rs61928110	0.83[ASN][1000 genomes]
rs61928158	0.97[ASN][1000 genomes]
rs6591771	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6591772	0.87[ASN][1000 genomes]
rs6591778	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7115707	0.94[ASN][1000 genomes]
rs7126435	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7130728	0.91[ASN][1000 genomes]
rs722508	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7925045	0.94[ASN][1000 genomes]
rs7925760	0.93[ASN][1000 genomes]
rs7928993	0.88[ASN][1000 genomes]
rs7929092	0.83[ASN][1000 genomes]
rs7932800	0.96[ASN][1000 genomes]
rs7938140	1.00[ASN][1000 genomes]
rs7938146	0.97[ASN][1000 genomes]
rs7938863	0.94[ASN][1000 genomes]
rs7949840	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045308	chr11:62803635-63109338	Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv541059	chr11:62803635-63109338	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv555177	chr11:62847518-63110569	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1049725	chr11:62848172-63057827	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv541060	chr11:62848172-63057827	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1047571	chr11:62848172-63109338	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv430397	chr11:62852616-63072310	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv897627	chr11:62984868-63119486	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1051171	chr11:62987064-63835715	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	100 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1211246	SLC22A25	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:63008800-63021800	Enhancers	HepG2	liver
2	chr11:63015000-63017800	Enhancers	Liver	Liver
3	chr11:63015200-63015600	Enhancers	Fetal Intestine Large	intestine

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