Variant report

Variant	rs5012511
Chromosome Location	chr6:5573199-5573200
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	chr6:5571772..5574003-chr6:5575874..5578608,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1985346	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2013289	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2064109	0.94[CEU][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2142736	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2326648	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2326649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2326651	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4960102	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4960106	0.94[CEU][hapmap]
rs4960107	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4960108	0.83[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6597144	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6597147	0.93[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6903542	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6941763	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7738509	0.89[CEU][hapmap];0.89[EUR][1000 genomes]
rs7739718	0.92[EUR][1000 genomes]
rs7744153	0.88[CEU][hapmap];0.92[EUR][1000 genomes]
rs7744367	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7744837	0.88[CHB][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7765047	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs7765256	0.84[CEU][hapmap];0.92[EUR][1000 genomes]
rs9328318	0.88[CEU][hapmap];0.91[EUR][1000 genomes]
rs9328319	0.88[CEU][hapmap];0.91[EUR][1000 genomes]
rs9328320	0.89[CEU][hapmap];0.92[EUR][1000 genomes]
rs9392084	0.90[CEU][hapmap];1.00[CHB][hapmap];0.92[EUR][1000 genomes]
rs9392698	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9405276	0.88[CEU][hapmap];0.87[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9405852	0.94[CEU][hapmap]
rs9405853	1.00[CEU][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9502320	1.00[CEU][hapmap];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019428	chr6:5216835-5627839	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538118	chr6:5216835-5627839	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1034607	chr6:5311590-5573514	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv538120	chr6:5311590-5573514	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv883420	chr6:5524393-5584422	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv5181	chr6:5536921-5581595	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv600887	chr6:5545046-5694713	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv1016905	chr6:5566364-5639167	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5538000-5573600	Weak transcription	Left Ventricle	heart
2	chr6:5551600-5575200	Weak transcription	Primary B cells from cord blood	blood
3	chr6:5565200-5576600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr6:5565200-5583200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:5567000-5575200	Weak transcription	Primary T cells from cord blood	blood
6	chr6:5571600-5573600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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