Variant report

Variant	rs16828808
Chromosome Location	chr3:157944341-157944342
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	chr3:157942867..157945587-chr3:157947255..157949250,2	MCF-7	breast:

Extended variants
information (count: 103 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10513524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10513525	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11388130	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1520659	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16828720	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16828727	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16828737	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16828740	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16828741	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16828746	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16828759	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16828767	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16828770	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16828774	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16828775	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16828778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16828800	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16828809	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16828841	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16828850	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16828887	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16828961	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16828966	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2362248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4411841	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4536777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4552311	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4635665	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55746917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56002119	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56024662	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56058155	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56106526	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56138932	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56286928	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56290300	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs57386317	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57611848	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs58277254	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58352503	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59024285	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59192297	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59344326	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59535842	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59903748	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59966175	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60175462	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60187224	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60364048	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60467343	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs60531369	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60928655	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61297176	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73874307	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73874313	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73874314	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73874316	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73874317	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874320	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73874321	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73874322	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73874324	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73874327	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73874329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73874331	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73874333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874334	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73874335	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73874336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73874338	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73874345	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874346	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73874347	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874348	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73874350	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874351	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874356	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874357	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874371	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874373	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73874377	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874378	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874380	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874385	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874387	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73874391	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73874397	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73874400	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73875326	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73877203	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73877204	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73877205	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73877206	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73877207	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73877209	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7434006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013391	chr3:157505943-158115553	Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv536775	chr3:157505943-158115553	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv829768	chr3:157832878-158012070	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv877689	chr3:157858930-158133307	Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv1819976	chr3:157923372-157945591	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
7	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157914200-157984400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:157919200-157958000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr3:157919800-157952800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:157920200-157957000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:157922000-157950000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:157927000-157945200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr3:157927000-157952600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:157927000-157968800	Weak transcription	Psoas Muscle	Psoas
9	chr3:157928200-157956200	Weak transcription	Primary B cells from peripheral blood	blood
10	chr3:157929000-157946800	Weak transcription	Dnd41	blood
11	chr3:157933800-157957200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr3:157935000-157951600	Weak transcription	K562	blood
13	chr3:157935600-157950000	Weak transcription	Thymus	Thymus
14	chr3:157935800-157955200	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr3:157936800-157950800	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr3:157936800-157962000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:157937200-157948600	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr3:157938000-157956600	Weak transcription	Primary B cells from cord blood	blood
19	chr3:157938200-157959000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr3:157938200-157961800	Weak transcription	Primary T cells from cord blood	blood
21	chr3:157941000-157945000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:157941400-157955200	Weak transcription	Lung	lung
23	chr3:157942000-157945000	Weak transcription	Fetal Heart	heart
24	chr3:157942800-157951000	Weak transcription	Primary T cells fromperipheralblood	blood

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