Variant report

Variant	rs2013387
Chromosome Location	chr1:173546835-173546836
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr1:173546703-173546950	MCF10A-Er-Src	breast:	n/a	n/a
2	JUND	chr1:173546679-173546926	HepG2	liver:	n/a	chr1:173546807-173546818
3	FOS	chr1:173546697-173546907	MCF10A-Er-Src	breast:	n/a	n/a
4	FOS	chr1:173546673-173546887	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr1:173546687-173546902	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:173546698..173549628-chr1:173553244..173556052,2	K562	blood:

Variant related genes	Relation type
SLC9C2	TF binding region

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10127525	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10157668	1.00[GIH][hapmap]
rs10158034	0.88[ASW][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10737302	1.00[GIH][hapmap]
rs10912652	1.00[EUR][1000 genomes]
rs10912653	1.00[EUR][1000 genomes]
rs10912654	1.00[EUR][1000 genomes]
rs10912655	1.00[EUR][1000 genomes]
rs10912657	1.00[EUR][1000 genomes]
rs10912658	1.00[EUR][1000 genomes]
rs10912659	1.00[EUR][1000 genomes]
rs11484566	1.00[EUR][1000 genomes]
rs12059066	1.00[EUR][1000 genomes]
rs12059068	0.88[ASW][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs12059157	1.00[EUR][1000 genomes]
rs12065033	0.88[ASW][hapmap];1.00[GIH][hapmap]
rs12066066	1.00[EUR][1000 genomes]
rs12066494	1.00[EUR][1000 genomes]
rs12067795	1.00[EUR][1000 genomes]
rs12068135	1.00[EUR][1000 genomes]
rs12073601	0.82[MEX][hapmap]
rs12075679	1.00[EUR][1000 genomes]
rs12076223	1.00[EUR][1000 genomes]
rs12079027	1.00[EUR][1000 genomes]
rs12079161	1.00[EUR][1000 genomes]
rs12081220	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12084685	1.00[EUR][1000 genomes]
rs12087885	0.88[ASW][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs12087918	1.00[EUR][1000 genomes]
rs12089398	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs12091486	1.00[EUR][1000 genomes]
rs12093198	1.00[EUR][1000 genomes]
rs12094752	1.00[EUR][1000 genomes]
rs12096136	1.00[EUR][1000 genomes]
rs12164490	1.00[EUR][1000 genomes]
rs13375322	1.00[EUR][1000 genomes]
rs1461016	1.00[EUR][1000 genomes]
rs1461017	1.00[EUR][1000 genomes]
rs1461018	1.00[EUR][1000 genomes]
rs16828416	1.00[GIH][hapmap]
rs16846052	1.00[GIH][hapmap];0.85[MEX][hapmap]
rs16846173	1.00[GIH][hapmap]
rs16846220	1.00[GIH][hapmap]
rs16846278	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16846288	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16846301	1.00[GIH][hapmap]
rs28767926	1.00[EUR][1000 genomes]
rs4354572	1.00[GIH][hapmap]
rs4494170	1.00[GIH][hapmap]
rs4916221	1.00[GIH][hapmap]
rs56036053	1.00[EUR][1000 genomes]
rs57609710	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58045923	1.00[EUR][1000 genomes]
rs59054917	1.00[EUR][1000 genomes]
rs61554547	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6425250	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6666475	1.00[EUR][1000 genomes]
rs6668650	1.00[EUR][1000 genomes]
rs6675955	1.00[EUR][1000 genomes]
rs6677292	1.00[EUR][1000 genomes]
rs6678784	0.88[ASW][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6682615	1.00[EUR][1000 genomes]
rs6686370	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6700712	1.00[EUR][1000 genomes]
rs7518601	1.00[EUR][1000 genomes]
rs7537369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9803675	1.00[EUR][1000 genomes]
rs9803677	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872549	chr1:173509586-173546835	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173543200-173547200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:173546600-173547600	Enhancers	NHEK	skin
3	chr1:173546600-173547800	Enhancers	HMEC	breast

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