Variant report

Variant	rs16879295
Chromosome Location	chr6:88129272-88129273
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	chr6:88128812..88133308-chr6:88181739..88184809,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164414	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12178951	0.92[EUR][1000 genomes]
rs12529618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12529631	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12530034	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13192579	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13195057	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13197065	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13198605	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13205397	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13217556	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13217637	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13218502	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13219364	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13220737	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16879293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2875534	0.92[EUR][1000 genomes]
rs34144911	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34294674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34373986	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34592526	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34726630	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34914404	0.92[EUR][1000 genomes]
rs35243146	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35562204	0.89[EUR][1000 genomes]
rs35580717	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35756344	0.92[EUR][1000 genomes]
rs35822597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs45563737	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58735049	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60711734	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6454604	0.92[EUR][1000 genomes]
rs66632635	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs66786089	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66805147	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66819255	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67569613	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67776922	0.92[EUR][1000 genomes]
rs68100217	0.92[EUR][1000 genomes]
rs71572754	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71572755	0.92[EUR][1000 genomes]
rs71572757	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71572758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv1018155	chr6:88049729-88272862	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv830722	chr6:88054186-88223625	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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