Variant report

Variant	rs3119700
Chromosome Location	chr9:15572608-15572609
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	chr9:15570769..15573187-chr9:15586351..15588425,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231376	Chromatin interaction

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:119)

rs_ID	r²[population]
rs10116904	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117524	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117803	0.83[AMR][1000 genomes]
rs10117823	0.83[AMR][1000 genomes]
rs10118595	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118675	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118719	0.86[EUR][1000 genomes]
rs10119257	1.00[CEU][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10119931	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10120171	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121012	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121911	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121971	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123084	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123651	0.83[AMR][1000 genomes]
rs10124655	0.84[EUR][1000 genomes]
rs10124718	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124746	1.00[ASN][1000 genomes]
rs10125713	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1039816	1.00[CEU][hapmap]
rs1041529	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10810445	1.00[YRI][hapmap]
rs10962054	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10962061	1.00[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12336383	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12336445	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12337310	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12344963	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348561	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348564	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348780	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12350062	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12350903	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12352398	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12353048	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12859	0.92[AMR][1000 genomes]
rs1355172	1.00[CEU][hapmap]
rs1509311	0.83[AMR][1000 genomes]
rs1553727	1.00[CEU][hapmap]
rs175762	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1848583	0.83[AMR][1000 genomes]
rs202321	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2055774	1.00[CEU][hapmap]
rs2064030	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2136354	1.00[CEU][hapmap]
rs2202865	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2221706	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2382536	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2665503	0.88[EUR][1000 genomes]
rs2665515	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2737840	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276434	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs276437	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276438	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276439	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276440	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276442	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276445	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276446	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276450	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276451	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276452	0.91[EUR][1000 genomes]
rs2777951	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2795125	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795127	0.87[YRI][hapmap];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2795128	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821525	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821529	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821530	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2821542	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821543	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821544	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28449490	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28497163	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28610358	0.88[EUR][1000 genomes]
rs28659858	0.91[AMR][1000 genomes]
rs28735068	0.94[EUR][1000 genomes]
rs28796681	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28800775	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28805077	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28808908	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28844368	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28882210	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28893033	1.00[ASN][1000 genomes]
rs2891001	0.87[EUR][1000 genomes]
rs3122701	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3122705	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129711	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs365710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381205	1.00[CEU][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392627	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs398117	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs398178	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs399808	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs401393	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs413356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs415157	0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs418153	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4237140	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs424131	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs443563	1.00[EUR][1000 genomes]
rs4445326	0.83[AMR][1000 genomes]
rs4740623	1.00[CEU][hapmap]
rs4741536	1.00[CEU][hapmap]
rs592452	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6474941	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs6474943	0.83[AMR][1000 genomes]
rs6474949	1.00[CEU][hapmap]
rs7021840	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035422	1.00[CEU][hapmap]
rs741930	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7852936	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7860339	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870315	1.00[CEU][hapmap]
rs796391	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs811282	1.00[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs926154	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9298729	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9406518	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv892629	chr9:15516375-15634326	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv3407839	chr9:15530438-15665653	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv892630	chr9:15554960-15694690	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1034795	chr9:15565670-15595591	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1028357	chr9:15565670-15622556	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15553800-15576200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr9:15553800-15580600	Weak transcription	Ovary	ovary
3	chr9:15553800-15592600	Weak transcription	Left Ventricle	heart
4	chr9:15554000-15590200	Weak transcription	Fetal Stomach	stomach
5	chr9:15554400-15579400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr9:15554600-15580800	Weak transcription	Brain Anterior Caudate	brain
7	chr9:15562200-15588200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr9:15562400-15583800	Weak transcription	Thymus	Thymus
9	chr9:15565000-15578800	Weak transcription	Fetal Thymus	thymus
10	chr9:15570600-15574800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr9:15571000-15574600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr9:15572200-15573200	Enhancers	Fetal Lung	lung
13	chr9:15572400-15580800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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