Variant report

Variant	rs11172046
Chromosome Location	chr12:57297540-57297541
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:57296707..57298337-chr12:57317278..57320273,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10876942	0.90[ASN][1000 genomes]
rs10876955	0.82[MEX][hapmap];0.91[TSI][hapmap];0.89[EUR][1000 genomes]
rs10876956	0.82[MEX][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs11172003	0.85[ASN][1000 genomes]
rs11172021	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11172022	0.85[ASN][1000 genomes]
rs11172026	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11172038	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11172064	0.89[EUR][1000 genomes]
rs11172065	0.89[EUR][1000 genomes]
rs11172066	0.82[CEU][hapmap];0.89[EUR][1000 genomes]
rs11172067	0.82[MEX][hapmap]
rs11613486	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17119149	0.92[EUR][1000 genomes]
rs4237807	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4415812	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4435043	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4477472	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4759035	0.89[ASW][hapmap];0.85[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap]
rs4759260	0.87[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4759261	0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4759262	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4759266	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61937853	0.87[ASN][1000 genomes]
rs7295197	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7296999	0.82[MEX][hapmap]
rs7307358	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7311658	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7954692	0.87[ASN][1000 genomes]
rs7964087	0.92[EUR][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	nsv1040850	chr12:57055011-57679209	Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	181 gene(s)	inside rSNPs	diseases
2	nsv899107	chr12:57293436-57321212	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:57295800-57298400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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