Variant report

Variant	rs2895376
Chromosome Location	chr3:110682594-110682595
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs1075303	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11717706	0.80[AFR][1000 genomes]
rs11919892	0.83[AFR][1000 genomes]
rs11927478	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11929280	0.85[CEU][hapmap]
rs13060876	0.81[AFR][1000 genomes]
rs13061640	0.81[AFR][1000 genomes]
rs13072462	0.80[AFR][1000 genomes]
rs1350980	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1381828	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1381836	0.85[CEU][hapmap]
rs1382075	0.81[AFR][1000 genomes]
rs1462789	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1462790	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1462793	0.90[ASN][1000 genomes]
rs1462795	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1462807	0.89[ASN][1000 genomes]
rs1477843	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs1477846	1.00[CEU][hapmap]
rs1477847	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs1477848	1.00[CEU][hapmap]
rs1477851	0.86[CEU][hapmap];1.00[YRI][hapmap]
rs1477854	0.83[AFR][1000 genomes]
rs1477855	0.83[AFR][1000 genomes]
rs1580288	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1585594	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1585595	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs1599663	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1599664	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1600059	0.83[AFR][1000 genomes]
rs16857350	0.85[CEU][hapmap]
rs16857483	0.98[ASN][1000 genomes]
rs1824666	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1903755	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1903759	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2002969	0.85[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2100875	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2126710	0.81[AFR][1000 genomes]
rs2126713	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs2399367	0.87[ASN][1000 genomes]
rs2399368	0.87[ASN][1000 genomes]
rs2399370	0.82[ASN][1000 genomes]
rs2399373	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs2399375	1.00[CEU][hapmap]
rs2399378	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs35665971	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4102676	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4234401	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4682028	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4682215	0.87[ASN][1000 genomes]
rs4682229	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs4682230	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs4682231	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs4682234	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs4682238	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs5000277	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6437940	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6437948	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs6437953	1.00[CEU][hapmap]
rs66513024	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs67056469	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6763050	0.85[CEU][hapmap]
rs6765948	0.83[ASN][1000 genomes]
rs6781480	0.81[AFR][1000 genomes]
rs67832786	0.90[ASN][1000 genomes]
rs6787921	0.88[ASN][1000 genomes]
rs6794645	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6805399	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6808847	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs723023	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs723025	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7430600	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7433877	0.85[CEU][hapmap]
rs7612572	0.80[AFR][1000 genomes]
rs7612667	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs7622983	0.98[ASN][1000 genomes]
rs7623064	0.98[ASN][1000 genomes]
rs7623103	0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7623880	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7632375	0.81[AFR][1000 genomes]
rs7632388	0.81[AFR][1000 genomes]
rs7637068	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7644948	0.98[ASN][1000 genomes]
rs873132	0.85[CEU][hapmap]
rs9288918	0.85[CEU][hapmap]
rs969940	0.85[CEU][hapmap]
rs9817950	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9821335	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[YRI][hapmap]
rs9826064	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9828899	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9837377	0.83[AFR][1000 genomes]
rs9839299	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9839674	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs9847598	0.83[AFR][1000 genomes]
rs9866028	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap]
rs9876350	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs9876543	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9877855	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats 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	13 gene(s)	inside rSNPs	diseases
2	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv829674	chr3:110616256-110771049	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	esv3444064	chr3:110679162-110683960	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110674800-110684600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:110680400-110683000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:110682400-110683000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell

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