Variant report

Variant	rs28796681
Chromosome Location	chr9:15543551-15543552
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr9:15543493-15543679	MCF10A-Er-Src	breast:	n/a	n/a
2	SP1	chr9:15543122-15543677	A549	lung:	n/a	n/a
3	FOSL2	chr9:15543071-15543642	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15540944..15543831-chr9:15548082..15550784,2	MCF-7	breast:

Variant related genes	Relation type
RNU6-246P	TF binding region

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs10116904	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117524	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10117803	0.83[AMR][1000 genomes]
rs10117823	0.83[AMR][1000 genomes]
rs10118595	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118675	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118719	0.97[EUR][1000 genomes]
rs10119257	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10119931	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10120171	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121012	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121911	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121971	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123084	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123651	0.83[AMR][1000 genomes]
rs10124655	0.94[EUR][1000 genomes]
rs10124718	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124746	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10125713	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1041529	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962054	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10962061	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];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12337310	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12344963	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348561	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348564	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348780	0.97[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];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12352398	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12353048	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12859	0.92[AMR][1000 genomes]
rs1509311	0.83[AMR][1000 genomes]
rs175762	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1848583	0.83[AMR][1000 genomes]
rs1882939	0.80[EUR][1000 genomes]
rs202321	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2064030	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2202865	1.00[ASN][1000 genomes]
rs2221706	0.91[AMR][1000 genomes]
rs2382536	0.83[AMR][1000 genomes]
rs2665503	0.94[EUR][1000 genomes]
rs2665510	0.80[EUR][1000 genomes]
rs2665511	0.80[EUR][1000 genomes]
rs2665512	0.80[EUR][1000 genomes]
rs2665515	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2737840	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276434	1.00[ASN][1000 genomes]
rs276437	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276438	0.92[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276439	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276440	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276442	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276445	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276446	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs276450	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276451	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs276452	0.80[EUR][1000 genomes]
rs2777951	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2795123	0.80[EUR][1000 genomes]
rs2795124	0.80[EUR][1000 genomes]
rs2795125	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2795127	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2795128	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2798717	0.83[AMR][1000 genomes]
rs2821525	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821529	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821530	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2821533	0.80[EUR][1000 genomes]
rs2821542	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821543	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2821544	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[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];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28610358	0.94[EUR][1000 genomes]
rs28659858	0.91[AMR][1000 genomes]
rs28735068	0.94[EUR][1000 genomes]
rs28800775	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28805077	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28808908	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28844368	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28882210	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28893033	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3119700	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3122701	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3122705	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3129711	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs365710	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs381205	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs392627	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs398117	1.00[ASN][1000 genomes]
rs398178	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs399808	1.00[ASN][1000 genomes]
rs401393	1.00[ASN][1000 genomes]
rs413356	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs415157	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs418153	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4237140	0.91[AMR][1000 genomes]
rs424131	1.00[ASN][1000 genomes]
rs443563	0.88[EUR][1000 genomes]
rs4445326	0.83[AMR][1000 genomes]
rs592452	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6474941	0.83[AMR][1000 genomes]
rs6474943	0.83[AMR][1000 genomes]
rs7021840	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs741930	0.92[AMR][1000 genomes]
rs7852936	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7860339	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796391	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs811282	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs909323	0.80[EUR][1000 genomes]
rs926154	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9298729	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9406518	0.83[AMR][1000 genomes];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:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15542000-15543800	Enhancers	Fetal Stomach	stomach
2	chr9:15542200-15544000	Enhancers	Primary neutrophils fromperipheralblood	blood
3	chr9:15542600-15543600	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr9:15542800-15543800	Enhancers	Monocytes-CD14+_RO01746	blood
5	chr9:15543200-15543600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:15543200-15543600	Flanking Active TSS	A549	lung
7	chr9:15543400-15543800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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