Variant report

Variant	rs1094599
Chromosome Location	chr1:180295701-180295702
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:180293913..180296801-chr1:180297022..180299145,2	MCF-7	breast:

Extended variants
information (count: 139 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs10157891	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733004	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10733005	0.89[EUR][1000 genomes]
rs10737343	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10737344	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10737345	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10753210	1.00[ASN][1000 genomes]
rs10753213	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10753214	1.00[ASN][1000 genomes]
rs10753217	1.00[ASN][1000 genomes]
rs10798744	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798749	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798763	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798764	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10913972	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10914011	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10914019	1.00[ASN][1000 genomes]
rs10914020	1.00[ASN][1000 genomes]
rs1094597	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1094598	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12027553	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12077904	1.00[ASN][1000 genomes]
rs12144149	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12565152	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339722	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339723	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1339726	1.00[ASN][1000 genomes]
rs1361363	1.00[ASN][1000 genomes]
rs1361628	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418100	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418103	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1556935	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1556938	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1591898	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1934411	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935283	1.00[ASN][1000 genomes]
rs1961741	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2153753	1.00[ASN][1000 genomes]
rs2262371	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2331739	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764432	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764434	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764435	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764436	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764437	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764438	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764439	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764440	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764441	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764442	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764444	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764451	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2764452	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2764453	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2764454	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2764456	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764457	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764458	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764459	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764461	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764462	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764467	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2764468	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794965	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2794966	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794967	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794968	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794969	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794970	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794971	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794972	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794973	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794974	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794975	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794976	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4259605	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4281291	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4304539	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4333819	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4532796	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4540612	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4609392	1.00[ASN][1000 genomes]
rs4651061	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4651063	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4651066	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4651067	1.00[ASN][1000 genomes]
rs4652501	1.00[ASN][1000 genomes]
rs4652502	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4652506	1.00[ASN][1000 genomes]
rs61811560	1.00[ASN][1000 genomes]
rs6425620	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425621	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425622	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425623	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425624	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425626	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425630	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425642	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6659147	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6664944	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6665615	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6667478	1.00[ASN][1000 genomes]
rs6669304	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677367	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6680754	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6682067	0.91[ASN][1000 genomes]
rs6683484	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6684842	1.00[ASN][1000 genomes]
rs6687873	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6691333	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6695360	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7515052	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7522928	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7526743	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7530015	0.94[EUR][1000 genomes]
rs7532972	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7543143	1.00[ASN][1000 genomes]
rs7546030	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7548707	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7548884	1.00[ASN][1000 genomes]
rs7555087	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs822703	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs822704	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs863720	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs863721	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs880911	0.87[EUR][1000 genomes]
rs912766	0.87[EUR][1000 genomes]
rs9425879	1.00[ASN][1000 genomes]
rs946633	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs946634	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs946635	0.87[EUR][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	nsv1003739	chr1:180027760-180483292	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv535217	chr1:180027760-180483292	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv832004	chr1:180128502-180335540	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv1001477	chr1:180172903-180298287	Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv535220	chr1:180172903-180298287	Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv527918	chr1:180279710-180443808	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1013716	chr1:180287338-180477072	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
8	nsv535221	chr1:180287338-180477072	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180257800-180296200	Weak transcription	Left Ventricle	heart
2	chr1:180278000-180298200	Weak transcription	Esophagus	oesophagus
3	chr1:180278800-180296000	Weak transcription	Pancreas	Pancrea
4	chr1:180279000-180297600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr1:180279600-180298800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:180281000-180329400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr1:180282800-180313400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:180283000-180302800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr1:180283000-180302800	Weak transcription	Fetal Intestine Large	intestine
10	chr1:180293800-180296600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr1:180294400-180303000	Weak transcription	Placenta	Placenta
12	chr1:180294800-180296400	ZNF genes & repeats	Fetal Intestine Small	intestine
13	chr1:180295000-180296000	ZNF genes & repeats	Primary T cells from cord blood	blood
14	chr1:180295000-180296000	Strong transcription	Fetal Stomach	stomach
15	chr1:180295000-180296600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
16	chr1:180295200-180296000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr1:180295400-180295800	ZNF genes & repeats	Primary B cells from cord blood	blood
18	chr1:180295400-180296200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr1:180295600-180296400	Strong transcription	Dnd41	blood
20	chr1:180295600-180297000	Weak transcription	Cortex derived primary cultured neurospheres	brain

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