Variant report

Variant	rs651988
Chromosome Location	chr7:124774316-124774317
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	chr7:124768386..124770245-chr7:124771796..124774751,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1020629	1.00[CHB][hapmap];0.86[CHD][hapmap]
rs10256073	0.87[CHB][hapmap];0.88[JPT][hapmap]
rs10266152	0.87[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap]
rs1031952	0.87[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10500102	0.94[CHB][hapmap];0.82[CHD][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs10954061	0.87[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap]
rs11761435	0.87[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.90[MEX][hapmap]
rs11771004	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs11771079	1.00[CHB][hapmap]
rs1248737	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs12531213	0.98[ASN][1000 genomes]
rs1357971	0.86[ASN][1000 genomes]
rs1404897	0.87[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.86[MEX][hapmap]
rs1471570	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs1525620	0.92[CHB][hapmap];0.86[CHD][hapmap]
rs1552116	0.88[CEU][hapmap];0.94[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap]
rs1552117	0.94[CEU][hapmap];0.94[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap]
rs1568882	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17147723	0.87[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap]
rs17147889	0.87[CHB][hapmap];0.82[CHD][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs2929321	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2929322	0.88[CEU][hapmap];0.87[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2968868	0.85[ASN][1000 genomes]
rs34246481	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap]
rs585988	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs590516	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs598102	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs612391	0.84[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap]
rs625037	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs627823	0.94[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs650653	0.94[CEU][hapmap];0.94[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs659269	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs663056	0.94[ASW][hapmap];0.94[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs664062	0.87[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs669273	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs670910	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs671359	0.94[CEU][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6965957	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs7794583	0.86[ASN][1000 genomes]
rs7797011	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs792749	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs967297	0.87[CHB][hapmap];0.86[CHD][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap]
rs9785002	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs9942625	0.93[CHB][hapmap];0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv429809	chr7:123937674-124835925	Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
2	esv3394090	chr7:124602150-124900799	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv464708	chr7:124703756-124805279	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv608344	chr7:124703756-124805279	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv831119	chr7:124714009-124890119	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:124739800-124776000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:124771000-124776400	Weak transcription	HUVEC	blood vessel
3	chr7:124773400-124776400	Weak transcription	Aorta	Aorta
4	chr7:124774000-124774800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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