Variant report

Variant	rs349059
Chromosome Location	chr11:84792041-84792042
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:84789796..84792505-chr11:84797965..84799859,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10501585	0.92[CEU][hapmap];0.90[CHB][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10792787	0.83[JPT][hapmap]
rs11600088	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[YRI][hapmap]
rs11605620	0.85[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap]
rs11607636	0.85[CEU][hapmap];0.93[CHB][hapmap]
rs11607740	0.86[CHB][hapmap]
rs17207058	0.86[CEU][hapmap];0.93[CHB][hapmap];0.86[YRI][hapmap]
rs1783749	1.00[CEU][hapmap];0.93[CHB][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs180953	0.81[EUR][1000 genomes]
rs180954	0.92[CEU][hapmap];0.93[CHB][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs349061	1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs349064	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.81[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs349067	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs349074	0.82[EUR][1000 genomes]
rs349075	0.81[EUR][1000 genomes]
rs349077	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs349078	0.89[JPT][hapmap]
rs349079	0.92[CEU][hapmap];0.82[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4271408	0.85[JPT][hapmap]
rs472375	0.93[CHB][hapmap];0.90[JPT][hapmap]
rs472406	0.92[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs483220	0.85[CEU][hapmap];0.93[CHB][hapmap]
rs494517	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs509179	0.92[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs570423	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs573963	0.93[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs576449	0.86[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap];0.89[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs582652	0.92[CEU][hapmap];0.93[CHB][hapmap];0.85[YRI][hapmap]
rs596423	0.92[CEU][hapmap];0.93[CHB][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs612389	0.93[CHB][hapmap];0.85[JPT][hapmap]
rs623403	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs624493	0.93[CHB][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap]
rs637930	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs651536	1.00[CEU][hapmap];0.93[CHB][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs659414	0.86[CEU][hapmap];0.80[CHB][hapmap];0.81[YRI][hapmap]
rs660451	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs660860	0.88[CHB][hapmap]
rs664417	0.92[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs678796	0.80[CHB][hapmap];0.81[YRI][hapmap];0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948410	chr11:83918339-84812001	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv430415	chr11:84661652-84833852	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1055097	chr11:84672444-84810441	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1040393	chr11:84708402-84866594	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv527535	chr11:84724795-84895033	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv528491	chr11:84724795-84895033	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1044370	chr11:84748993-85293233	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:84788400-84792600	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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