Variant report

Variant	rs7632884
Chromosome Location	chr3:160372591-160372592
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	chr3:160367747..160369852-chr3:160370471..160373383,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10936207	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10936208	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10936209	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11709300	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11714916	0.82[ASN][1000 genomes]
rs13065289	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095931	0.86[EUR][1000 genomes]
rs1317085	0.84[EUR][1000 genomes]
rs1403045	0.81[JPT][hapmap]
rs16831337	0.81[JPT][hapmap]
rs17236586	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1879797	0.81[CHB][hapmap]
rs2178452	0.84[EUR][1000 genomes]
rs2204817	0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2367209	0.82[ASN][1000 genomes]
rs28544045	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28730907	0.87[EUR][1000 genomes]
rs34362576	0.87[EUR][1000 genomes]
rs34949451	0.87[EUR][1000 genomes]
rs35308461	0.86[EUR][1000 genomes]
rs35480231	0.86[EUR][1000 genomes]
rs35664264	0.84[EUR][1000 genomes]
rs35867836	0.86[EUR][1000 genomes]
rs36118017	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3946273	0.83[EUR][1000 genomes]
rs4133253	0.81[JPT][hapmap]
rs4679659	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4679660	0.87[EUR][1000 genomes]
rs4679909	0.85[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs4679910	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60028768	0.82[EUR][1000 genomes]
rs62272215	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62272216	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62272217	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62272218	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62272219	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62272220	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6773389	0.87[EUR][1000 genomes]
rs6773962	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774379	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6774566	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6776873	0.87[EUR][1000 genomes]
rs6777739	0.89[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6779581	0.89[CEU][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs6779671	0.89[CEU][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs6787452	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6797760	0.87[EUR][1000 genomes]
rs6798462	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6801373	0.87[EUR][1000 genomes]
rs6806755	0.81[JPT][hapmap]
rs7610939	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv877703	chr3:160325458-160398885	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	esv2757019	chr3:160351021-160380161	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv2759194	chr3:160351021-160380161	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7632884	SMC4	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160372000-160372600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:160372000-160372600	Enhancers	HMEC	breast
3	chr3:160372200-160372600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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