Variant report

Variant	rs6803915
Chromosome Location	chr3:28537132-28537133
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:28536026..28538572-chr3:28540874..28543752,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10510610	0.87[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.88[ASN][1000 genomes]
rs11716132	0.88[ASN][1000 genomes]
rs12106746	0.87[CEU][hapmap];0.82[JPT][hapmap]
rs12485652	0.87[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.88[ASN][1000 genomes]
rs12488712	0.87[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs12491905	0.87[CEU][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs12493720	0.87[CEU][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12493797	0.87[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.88[ASN][1000 genomes]
rs12495684	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs13068978	0.87[CEU][hapmap];0.82[JPT][hapmap]
rs13089663	0.88[ASN][1000 genomes]
rs13095609	0.87[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap]
rs13099977	0.81[CEU][hapmap];1.00[JPT][hapmap]
rs1588669	1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap]
rs1599951	0.81[CEU][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.92[TSI][hapmap]
rs17639954	0.87[CEU][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1870258	0.87[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap]
rs34400037	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34539152	0.87[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.88[ASN][1000 genomes]
rs4342066	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4393865	0.87[CEU][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap]
rs4552313	0.81[CEU][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap]
rs4680755	0.90[EUR][1000 genomes]
rs4680912	0.84[CEU][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs56058287	0.88[ASN][1000 genomes]
rs6551254	0.82[ASN][1000 genomes]
rs6763250	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6779661	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6786752	0.87[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs6799435	0.81[CEU][hapmap]
rs6805638	0.81[CEU][hapmap];0.82[JPT][hapmap]
rs7629714	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv876650	chr3:28427029-28613602	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1015015	chr3:28461972-28728494	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv916364	chr3:28468275-29146280	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv590010	chr3:28469830-28727214	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 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	chr3:28514800-28575800	Weak transcription	Ovary	ovary
2	chr3:28527800-28539600	Weak transcription	Adipose Nuclei	Adipose
3	chr3:28536600-28538400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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