Variant report

Variant	rs7642701
Chromosome Location	chr3:46091058-46091059
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs11130085	0.81[ASN][1000 genomes]
rs11917890	0.81[ASN][1000 genomes]
rs11929281	0.81[ASN][1000 genomes]
rs12485978	0.88[EUR][1000 genomes]
rs12495073	0.92[ASN][1000 genomes]
rs12496322	0.81[ASN][1000 genomes]
rs12629632	0.88[EUR][1000 genomes]
rs12637023	0.81[ASN][1000 genomes]
rs13059919	0.86[ASN][1000 genomes]
rs13060901	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13065737	0.89[EUR][1000 genomes]
rs13077099	0.81[ASN][1000 genomes]
rs13082280	0.87[EUR][1000 genomes]
rs13098271	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13434029	0.87[EUR][1000 genomes]
rs13434336	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1392290	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1491959	0.86[ASN][1000 genomes]
rs1500005	0.88[ASN][1000 genomes]
rs1546077	0.81[ASN][1000 genomes]
rs1546078	0.81[ASN][1000 genomes]
rs1602579	0.89[EUR][1000 genomes]
rs1604069	0.85[ASN][1000 genomes]
rs17078577	0.81[ASN][1000 genomes]
rs1909595	0.83[ASN][1000 genomes]
rs1909596	0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1976366	0.81[ASN][1000 genomes]
rs1976367	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2036292	0.86[ASN][1000 genomes]
rs2201984	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2373151	0.87[EUR][1000 genomes]
rs28808964	0.88[ASN][1000 genomes]
rs34381514	0.88[ASN][1000 genomes]
rs34906043	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35359253	0.89[EUR][1000 genomes]
rs35435608	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35462017	0.88[EUR][1000 genomes]
rs35657218	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35688834	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3851347	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4234452	0.88[ASN][1000 genomes]
rs4314213	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4333119	0.88[ASN][1000 genomes]
rs4682806	0.83[ASN][1000 genomes]
rs4682809	0.81[ASN][1000 genomes]
rs4682810	0.81[ASN][1000 genomes]
rs4683168	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683175	0.81[ASN][1000 genomes]
rs4683178	0.81[ASN][1000 genomes]
rs56800498	0.92[AFR][1000 genomes]
rs59521415	0.89[EUR][1000 genomes]
rs60539039	0.90[ASN][1000 genomes]
rs6764042	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6784214	0.81[ASN][1000 genomes]
rs6794103	0.81[ASN][1000 genomes]
rs6795629	0.81[ASN][1000 genomes]
rs6800484	0.84[ASN][1000 genomes]
rs6805094	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7609756	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7610518	0.88[EUR][1000 genomes]
rs7616464	0.88[ASN][1000 genomes]
rs7623190	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7623460	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7631598	0.86[ASN][1000 genomes]
rs9311386	0.85[ASN][1000 genomes]
rs9311387	0.85[ASN][1000 genomes]
rs9637425	0.81[ASN][1000 genomes]
rs9824886	0.89[ASN][1000 genomes]
rs9849015	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9863204	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9870445	0.85[ASN][1000 genomes]
rs9876587	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9990063	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2756987	chr3:46016464-46120400	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv2759145	chr3:46016464-46120400	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv1805205	chr3:46032847-46111081	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46087600-46095800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:46090000-46091200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:46090400-46091200	Enhancers	Placenta	Placenta
4	chr3:46090400-46091600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:46090400-46091800	Enhancers	NHEK	skin
6	chr3:46090400-46092400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:46091000-46092200	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links