Variant report

Variant	rs10117524
Chromosome Location	chr9:15550391-15550392
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:15548082..15550677-chr9:15551279..15553386,2	MCF-7	breast:
2	chr9:15509318..15512022-chr9:15550389..15555494,9	MCF-7	breast:
3	chr9:15540944..15543831-chr9:15548082..15550784,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164985	Chromatin interaction
ENSG00000164989	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10116904	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118595	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118675	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118719	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10119257	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10119931	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10120171	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121012	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121911	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121971	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123084	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124655	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10124718	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124746	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10125713	0.91[EUR][1000 genomes]
rs1041529	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962054	1.00[ASN][1000 genomes]
rs10962061	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12336383	1.00[ASN][1000 genomes]
rs12336445	1.00[ASN][1000 genomes]
rs12337310	1.00[ASN][1000 genomes]
rs12344963	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348561	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348564	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348780	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12350062	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12350903	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12352398	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12353048	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs175762	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882939	0.88[AMR][1000 genomes]
rs202321	1.00[ASN][1000 genomes]
rs2064030	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2202865	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2665503	0.91[EUR][1000 genomes]
rs2665510	0.88[AMR][1000 genomes]
rs2665511	0.88[AMR][1000 genomes]
rs2665512	0.88[AMR][1000 genomes]
rs2665515	1.00[ASN][1000 genomes]
rs2737836	0.88[AMR][1000 genomes]
rs2737840	1.00[ASN][1000 genomes]
rs276434	1.00[ASN][1000 genomes]
rs276437	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276438	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276439	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276440	1.00[ASN][1000 genomes]
rs276442	1.00[ASN][1000 genomes]
rs276445	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276446	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276450	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276451	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276452	0.88[EUR][1000 genomes]
rs2777951	1.00[ASN][1000 genomes]
rs2795123	0.88[AMR][1000 genomes]
rs2795124	0.88[AMR][1000 genomes]
rs2795125	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2795128	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821525	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821529	1.00[ASN][1000 genomes]
rs2821533	0.88[AMR][1000 genomes]
rs2821542	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821543	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821544	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28449490	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28497163	1.00[ASN][1000 genomes]
rs28610358	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28735068	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28796681	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28800775	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28805077	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28808908	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28844368	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28882210	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28893033	1.00[ASN][1000 genomes]
rs2891001	0.85[EUR][1000 genomes]
rs3119700	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3122701	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3122705	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129711	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs365710	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381205	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392627	1.00[ASN][1000 genomes]
rs398117	1.00[ASN][1000 genomes]
rs398178	1.00[ASN][1000 genomes]
rs399808	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs401393	1.00[ASN][1000 genomes]
rs413356	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs415157	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs418153	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs424131	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs443563	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs592452	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7021840	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs741930	0.85[EUR][1000 genomes]
rs7852936	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7860339	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796391	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs811282	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs909323	0.83[AMR][1000 genomes]
rs926154	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9406518	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15544000-15551800	Weak transcription	A549	lung
2	chr9:15549600-15550400	Enhancers	Primary neutrophils fromperipheralblood	blood
3	chr9:15549800-15551200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:15549800-15551600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:15550000-15551800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr9:15550200-15550600	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:15550200-15550600	Enhancers	Small Intestine	intestine
8	chr9:15550200-15550800	Enhancers	Duodenum Mucosa	Duodenum
9	chr9:15550200-15551200	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr9:15550200-15551800	Enhancers	Primary hematopoietic stem cells	blood
11	chr9:15550200-15552000	Enhancers	Fetal Thymus	thymus

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