Variant report

Variant	rs6940859
Chromosome Location	chr6:11476228-11476229
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11472497..11474749-chr6:11475109..11477785,2	MCF-7	breast:
2	chr6:11465282..11468042-chr6:11475688..11477880,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10807115	0.81[AMR][1000 genomes]
rs10947398	0.85[EUR][1000 genomes]
rs11751884	0.81[AMR][1000 genomes]
rs11752836	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11755780	0.89[CEU][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs11756371	0.81[AMR][1000 genomes]
rs12192094	0.88[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs12194771	0.80[EUR][1000 genomes]
rs12198765	0.87[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs12198774	0.88[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs12198950	0.88[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs12200391	0.81[AMR][1000 genomes]
rs12200454	0.88[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs12528839	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs145176	0.84[EUR][1000 genomes]
rs2025184	0.88[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs2025185	0.91[JPT][hapmap]
rs2327440	0.84[CEU][hapmap]
rs2758307	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2807964	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3857556	0.80[EUR][1000 genomes]
rs4711306	0.88[CEU][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs4713593	0.85[AMR][1000 genomes]
rs4713594	0.89[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs4713618	0.92[CEU][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes]
rs505685	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs588062	0.95[JPT][hapmap]
rs595877	0.84[CEU][hapmap];0.95[JPT][hapmap]
rs61570488	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs616729	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67846147	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs681483	0.96[CEU][hapmap];1.00[JPT][hapmap]
rs6899820	0.87[ASN][1000 genomes]
rs6901328	0.88[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs6904400	0.97[ASN][1000 genomes]
rs6907796	0.81[AMR][1000 genomes]
rs6908807	0.80[EUR][1000 genomes]
rs6913697	0.87[AMR][1000 genomes]
rs6914208	0.87[AMR][1000 genomes]
rs6914420	0.87[AMR][1000 genomes]
rs6915153	0.87[AMR][1000 genomes]
rs6915366	0.87[AMR][1000 genomes]
rs6916089	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6926422	0.80[ASN][1000 genomes]
rs6930371	0.85[EUR][1000 genomes]
rs6932324	0.80[EUR][1000 genomes]
rs6936326	0.81[CEU][hapmap]
rs6941011	0.89[CEU][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes]
rs6941700	0.87[AMR][1000 genomes]
rs7770004	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9348892	0.87[AMR][1000 genomes]
rs9348895	0.89[CEU][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes]
rs9348896	0.88[CEU][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes]
rs9357150	0.99[ASN][1000 genomes]
rs9357154	0.89[CEU][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes]
rs9366805	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9366806	0.91[JPT][hapmap];0.80[AMR][1000 genomes]
rs9380310	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9380311	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9380315	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9394102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9394117	0.89[CEU][hapmap];0.91[JPT][hapmap]
rs9394146	0.80[EUR][1000 genomes]
rs9394154	0.85[CEU][hapmap];0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11470200-11479200	Weak transcription	Fetal Kidney	kidney
2	chr6:11474000-11477200	Weak transcription	Aorta	Aorta
3	chr6:11475000-11477000	Weak transcription	Ovary	ovary
4	chr6:11475000-11480600	Weak transcription	Placenta	Placenta
5	chr6:11475200-11476400	Enhancers	Fetal Lung	lung
6	chr6:11475600-11476600	Enhancers	HMEC	breast
7	chr6:11475600-11477200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr6:11476000-11476600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr6:11476000-11476600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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