Variant report

Variant	rs13316563
Chromosome Location	chr3:140346815-140346816
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs1009558	1.00[AMR][1000 genomes]
rs13315403	1.00[AMR][1000 genomes]
rs13433760	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13433933	0.81[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13434096	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1389813	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1561766	1.00[AMR][1000 genomes]
rs1567642	1.00[AMR][1000 genomes]
rs1827168	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1827169	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2119726	0.90[AMR][1000 genomes]
rs2165583	0.83[AMR][1000 genomes]
rs28567961	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28569452	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28803908	1.00[AMR][1000 genomes]
rs56287987	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57787093	1.00[AMR][1000 genomes]
rs58002592	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58071968	1.00[AMR][1000 genomes]
rs58294993	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59844814	1.00[AMR][1000 genomes]
rs60240007	0.91[AMR][1000 genomes]
rs60887734	1.00[AMR][1000 genomes]
rs61598941	1.00[AMR][1000 genomes]
rs61673653	1.00[AMR][1000 genomes]
rs6439937	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6763286	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6766452	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6773423	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6790926	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6798999	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6803694	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6806640	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979237	1.00[AMR][1000 genomes]
rs72979242	1.00[AMR][1000 genomes]
rs72979243	1.00[AMR][1000 genomes]
rs72979250	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979253	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72981933	1.00[AMR][1000 genomes]
rs72981959	1.00[AMR][1000 genomes]
rs7430829	1.00[AMR][1000 genomes]
rs7432960	1.00[AMR][1000 genomes]
rs7627138	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7639139	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7649377	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7651804	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9289605	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9289606	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9808968	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9813212	0.81[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9813825	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9822864	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9823422	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9827955	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9828653	0.81[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9828789	0.81[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9830692	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9830840	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834822	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9840918	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9841078	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9843928	1.00[AMR][1000 genomes]
rs9844923	1.00[AMR][1000 genomes]
rs9844924	1.00[AMR][1000 genomes]
rs9857931	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9865529	0.91[AMR][1000 genomes]
rs9865940	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9868284	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9869402	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9870785	1.00[AMR][1000 genomes]
rs9872697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9877773	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879403	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879413	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9880582	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9882754	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883053	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883273	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9883666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757891	chr3:139925764-140524730	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv2759181	chr3:139925764-140524730	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv527831	chr3:139932966-140533823	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv34489	chr3:140009020-140469302	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv2757012	chr3:140009220-140460228	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv870185	chr3:140265153-140395673	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv877546	chr3:140299603-140468370	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv997694	chr3:140324012-140464786	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1008123	chr3:140328825-140464786	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv460869	chr3:140330108-140450655	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv591864	chr3:140330108-140450655	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv818170	chr3:140330108-140454836	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv829742	chr3:140334045-140357105	Enhancers Weak transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140344400-140348200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:140346200-140349000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:140346200-140349600	Enhancers	HSMM	muscle
4	chr3:140346200-140352800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:140346400-140348200	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:140346400-140350000	Enhancers	Osteobl	bone
7	chr3:140346400-140350200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:140346400-140350200	Enhancers	NHDF-Ad	bronchial
9	chr3:140346400-140350200	Enhancers	NHEK	skin
10	chr3:140346600-140347600	Weak transcription	HSMMtube	muscle
11	chr3:140346600-140350000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:140346600-140350200	Enhancers	HMEC	breast
13	chr3:140346600-140352000	Enhancers	Placenta Amnion	Placenta Amnion
14	chr3:140346800-140350000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:140346800-140350000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:140346800-140350200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:140346800-140350200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr3:140346800-140350400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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