Variant report

Variant	rs16969395
Chromosome Location	chr15:39910830-39910831
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:39909459..39912628-chr15:39921888..39923922,3	MCF-7	breast:
2	chr15:39876322..39882916-chr15:39908249..39913734,7	MCF-7	breast:
3	chr15:39892602..39894529-chr15:39910543..39912935,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150667	Chromatin interaction
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 146 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:138)

rs_ID	r²[population]
rs10152640	0.97[ASN][1000 genomes]
rs10520137	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10520138	0.97[ASN][1000 genomes]
rs10520142	0.81[ASN][1000 genomes]
rs11070220	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11070221	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11070222	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11070223	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11070224	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11070225	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11070226	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11070227	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11070228	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1134485	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1134486	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11630406	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11632117	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11632879	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11635103	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11636823	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11638041	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11638558	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11852591	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11852649	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11855487	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11856971	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11857819	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12443011	0.97[ASN][1000 genomes]
rs12899323	0.84[EUR][1000 genomes]
rs12901142	0.82[EUR][1000 genomes]
rs12903514	0.83[EUR][1000 genomes]
rs12908846	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12911549	0.85[EUR][1000 genomes]
rs12912082	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1478604	0.85[ASN][1000 genomes]
rs1478605	0.85[ASN][1000 genomes]
rs16969386	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16969410	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16969426	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16969429	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16969451	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16969459	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16969475	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16969478	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1876852	0.84[ASN][1000 genomes]
rs1876853	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1904209	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2169830	0.85[ASN][1000 genomes]
rs2228261	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2229364	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2292305	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2411299	0.84[EUR][1000 genomes]
rs2411308	0.81[EUR][1000 genomes]
rs2411309	0.83[EUR][1000 genomes]
rs2411311	0.85[EUR][1000 genomes]
rs2411313	0.91[EUR][1000 genomes]
rs2411314	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2411315	0.80[ASN][1000 genomes]
rs2412412	0.82[ASN][1000 genomes]
rs2412413	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2412414	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2412415	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2412416	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2412417	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2412418	0.84[ASN][1000 genomes]
rs2412419	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2412420	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2412421	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2618162	0.84[ASN][1000 genomes]
rs2618163	0.84[ASN][1000 genomes]
rs2664139	0.84[ASN][1000 genomes]
rs2664141	0.88[ASN][1000 genomes]
rs28437905	0.83[EUR][1000 genomes]
rs2898685	0.84[EUR][1000 genomes]
rs2898686	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2898688	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2898962	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3743125	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4319740	0.84[ASN][1000 genomes]
rs4349120	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4479205	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4480779	0.83[EUR][1000 genomes]
rs4526992	0.89[EUR][1000 genomes]
rs4547308	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4583211	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4606692	0.85[EUR][1000 genomes]
rs4628934	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56938133	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59449051	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60164392	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60195210	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61130460	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61439563	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61568256	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6492909	0.83[EUR][1000 genomes]
rs66781090	0.82[ASN][1000 genomes]
rs67239630	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7162070	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7162781	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7167100	0.83[EUR][1000 genomes]
rs7167184	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7167366	0.91[ASN][1000 genomes]
rs7168755	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7169478	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7169574	0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7170335	0.80[ASN][1000 genomes]
rs7170682	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7176721	0.81[ASN][1000 genomes]
rs7177324	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7179293	0.94[ASN][1000 genomes]
rs7179608	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7180675	0.81[ASN][1000 genomes]
rs7183544	0.85[ASN][1000 genomes]
rs72725079	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72725080	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72725084	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72725093	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72725101	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs753598	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs753599	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8026916	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8029602	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8032035	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8032289	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8033902	0.83[EUR][1000 genomes]
rs8034594	0.96[ASN][1000 genomes]
rs8036226	0.83[EUR][1000 genomes]
rs8036376	0.85[ASN][1000 genomes]
rs8036633	0.85[ASN][1000 genomes]
rs8039035	0.96[ASN][1000 genomes]
rs8042068	0.85[EUR][1000 genomes]
rs884584	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9302102	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs949646	0.92[ASN][1000 genomes]
rs964424	0.84[ASN][1000 genomes]
rs9806365	0.83[ASN][1000 genomes]
rs9806647	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs999393	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[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	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv832977	chr15:39817512-39981520	Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv1048628	chr15:39877498-39940104	Enhancers Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	nsv1502	chr15:39884314-39928968	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	nsv832978	chr15:39899759-40094881	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39904000-39913400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:39906600-39916000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr15:39908800-39911400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:39909200-39911000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr15:39909200-39913400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr15:39909800-39911000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr15:39909800-39911000	Enhancers	Liver	Liver
8	chr15:39909800-39913200	Weak transcription	HUVEC	blood vessel
9	chr15:39910000-39911000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr15:39910200-39911000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr15:39910400-39911000	Flanking Active TSS	NHEK	skin
12	chr15:39910600-39911000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:39910600-39911000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
14	chr15:39910600-39911000	Enhancers	Left Ventricle	heart
15	chr15:39910600-39911000	Flanking Active TSS	HMEC	breast
16	chr15:39910600-39915400	Weak transcription	A549	lung
17	chr15:39910800-39911000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr15:39910800-39916200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:39910800-39917400	Weak transcription	Small Intestine	intestine

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