Variant report

Variant	rs16824688
Chromosome Location	chr1:185866967-185866968
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	chr1:185864902..185867350-chr1:185868645..185870866,2	MCF-7	breast:

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10465478	1.00[EUR][1000 genomes]
rs10465499	1.00[EUR][1000 genomes]
rs12239587	0.92[ASW][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12239922	0.89[AFR][1000 genomes]
rs12239929	0.86[YRI][hapmap];0.89[AFR][1000 genomes]
rs1322354	0.92[ASW][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1322355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1322356	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13375391	1.00[EUR][1000 genomes]
rs16824368	1.00[EUR][1000 genomes]
rs16824645	0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824657	0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824658	0.92[ASW][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16824663	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824665	0.92[ASW][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16824668	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824669	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824673	1.00[EUR][1000 genomes]
rs16824678	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824692	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824719	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824725	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824726	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16824728	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16824729	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824732	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16824736	0.82[AFR][1000 genomes]
rs16824741	0.81[AFR][1000 genomes]
rs16824744	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1951512	0.88[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1951513	0.88[YRI][hapmap];0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1951515	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1951516	1.00[EUR][1000 genomes]
rs41533044	1.00[EUR][1000 genomes]
rs55678382	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs55943726	0.81[AFR][1000 genomes]
rs55975103	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56182901	1.00[EUR][1000 genomes]
rs57103984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57289095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57454743	1.00[EUR][1000 genomes]
rs58063730	1.00[EUR][1000 genomes]
rs58437418	1.00[EUR][1000 genomes]
rs59787112	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61261990	1.00[EUR][1000 genomes]
rs6425006	0.83[MKK][hapmap]
rs6425008	0.88[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6664313	0.92[ASW][hapmap];0.87[LWK][hapmap];0.94[MKK][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6664384	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6666206	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6666950	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6667046	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6679622	0.91[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6679893	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6689494	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6689783	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6690968	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6701167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6703739	0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73054454	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73054465	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73056300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058209	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058224	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058243	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73058250	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73062122	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73062125	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73062132	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73062134	0.82[AFR][1000 genomes]
rs73062135	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73062140	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73062161	1.00[EUR][1000 genomes]
rs73062166	1.00[EUR][1000 genomes]
rs74134212	1.00[EUR][1000 genomes]
rs744737	1.00[EUR][1000 genomes]
rs7518783	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7544887	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9628634	1.00[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	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	esv3424090	chr1:185679718-186270877	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 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	chr1:185863400-185868000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:185866200-185867200	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr1:185866600-185870400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:185866800-185867000	Enhancers	iPS-15b Cell Line	embryonic stem cell

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