Variant report

Variant	rs826809
Chromosome Location	chr7:147067719-147067720
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:147065836..147067829-chr7:147068950..147071013,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1358540	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs1479846	0.88[JPT][hapmap]
rs1525220	0.88[JPT][hapmap]
rs1528515	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs2178212	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs2620484	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs2620485	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap]
rs4726860	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs4726861	0.84[CHB][hapmap];0.82[JPT][hapmap]
rs6464803	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs6464804	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs6944237	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs6972045	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs700294	0.86[JPT][hapmap]
rs700295	0.81[JPT][hapmap]
rs700304	0.83[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs700305	0.84[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs700309	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs7781124	0.89[CHB][hapmap];0.88[JPT][hapmap]
rs7807007	0.89[CHB][hapmap];0.82[JPT][hapmap]
rs826643	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs826644	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs826654	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs826794	0.88[JPT][hapmap]
rs826795	0.88[JPT][hapmap]
rs826796	0.85[JPT][hapmap]
rs826798	0.88[JPT][hapmap]
rs826799	0.88[JPT][hapmap]
rs826808	0.87[CHD][hapmap];0.83[GIH][hapmap];0.89[JPT][hapmap]
rs826811	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs826816	0.84[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs826819	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs826820	0.88[JPT][hapmap]
rs826821	1.00[CEU][hapmap];0.89[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.96[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs826825	0.84[JPT][hapmap]
rs826827	0.85[JPT][hapmap]
rs826828	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs826829	0.84[JPT][hapmap]
rs826831	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs861160	1.00[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.91[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933033	chr7:146720301-147081560	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1033898	chr7:146721499-147081768	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv931005	chr7:146730472-147381257	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1033398	chr7:146989035-147101573	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
5	nsv465192	chr7:147001077-147086045	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
6	nsv608943	chr7:147001077-147086045	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs826809	KCNH2	cis	parietal	SCAN

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

No data

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