Variant report

Variant	rs6564960
Chromosome Location	chr16:82054639-82054640
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	chr16:82027010..82029205-chr16:82052580..82054866,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11865006	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13333646	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13333826	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13334514	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16956130	1.00[CHB][hapmap]
rs16956174	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs16956191	1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs16956202	1.00[CHB][hapmap]
rs16956236	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16956242	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16956248	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs28448330	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28448747	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28558197	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28634487	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955159	1.00[JPT][hapmap]
rs3111351	0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs34132140	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs36043523	1.00[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap]
rs41530451	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4262939	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4536470	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap]
rs4541072	0.89[ASN][1000 genomes]
rs4628962	1.00[JPT][hapmap]
rs4636900	1.00[CHB][hapmap]
rs57566286	0.86[AMR][1000 genomes]
rs58097356	0.89[ASN][1000 genomes]
rs59151852	0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60200374	0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6564956	1.00[CHB][hapmap]
rs6564957	0.89[ASN][1000 genomes]
rs7188332	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7190839	1.00[JPT][hapmap]
rs7193161	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7194226	1.00[CHB][hapmap]
rs7195977	0.95[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7196087	0.86[GIH][hapmap];1.00[JPT][hapmap]
rs7198264	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7200696	1.00[JPT][hapmap]
rs7200711	1.00[JPT][hapmap]
rs7201738	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7202378	1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7205983	0.87[CHD][hapmap]
rs73600733	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73600740	0.89[ASN][1000 genomes]
rs74029358	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs8046220	1.00[EUR][1000 genomes]
rs8046900	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8048305	0.95[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8048713	1.00[AMR][1000 genomes]
rs8049910	1.00[CHB][hapmap]
rs8053337	0.89[ASN][1000 genomes]
rs8063275	0.86[MEX][hapmap]
rs8064052	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8191112	1.00[JPT][hapmap]
rs8191135	1.00[JPT][hapmap]
rs8191155	1.00[JPT][hapmap]
rs8191158	1.00[JPT][hapmap]
rs8191159	0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs8191198	1.00[JPT][hapmap]
rs9921872	1.00[CHB][hapmap]
rs9933207	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][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	nsv907012	chr16:81986896-82115148	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1058368	chr16:82029516-82152788	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv532598	chr16:82034475-82738733	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:82054200-82055400	Enhancers	Duodenum Mucosa	Duodenum
2	chr16:82054600-82055200	Enhancers	Small Intestine	intestine

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