Variant report

Variant	rs7643438
Chromosome Location	chr3:179983857-179983858
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:179983027..179985033-chr3:179991049..179993504,2	K562	blood:
2	chr3:179900353..179902836-chr3:179983179..179985276,2	K562	blood:

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10513771	0.85[ASN][1000 genomes]
rs10755138	0.85[EUR][1000 genomes]
rs12108143	0.88[EUR][1000 genomes]
rs12108145	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12486206	0.86[ASN][1000 genomes]
rs12491089	0.87[ASN][1000 genomes]
rs12497420	0.93[ASN][1000 genomes]
rs12638851	0.85[ASN][1000 genomes]
rs12638877	0.87[ASN][1000 genomes]
rs13322790	0.88[ASN][1000 genomes]
rs1357904	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1464844	0.80[EUR][1000 genomes]
rs1464845	0.85[ASN][1000 genomes]
rs1525272	0.81[EUR][1000 genomes]
rs1525276	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1581549	0.80[EUR][1000 genomes]
rs1589858	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16831219	0.80[ASN][1000 genomes]
rs16831288	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16831406	0.84[ASN][1000 genomes]
rs1852123	0.81[EUR][1000 genomes]
rs2091273	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2337368	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2337369	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2878954	0.91[ASN][1000 genomes]
rs3849424	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3849425	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3849426	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3906012	0.93[EUR][1000 genomes]
rs3906013	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3906014	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3914867	0.92[ASN][1000 genomes]
rs3914868	0.92[ASN][1000 genomes]
rs3914869	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3914871	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4108253	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4109306	0.81[EUR][1000 genomes]
rs4241377	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4568133	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4854903	0.85[ASN][1000 genomes]
rs4854907	0.94[EUR][1000 genomes]
rs4854964	0.88[ASN][1000 genomes]
rs4854966	0.85[ASN][1000 genomes]
rs4854968	0.94[EUR][1000 genomes]
rs4854969	0.84[EUR][1000 genomes]
rs4854970	0.85[ASN][1000 genomes]
rs55996463	0.81[EUR][1000 genomes]
rs56234136	0.85[ASN][1000 genomes]
rs62292283	0.84[ASN][1000 genomes]
rs62292284	0.84[ASN][1000 genomes]
rs62292290	0.85[ASN][1000 genomes]
rs62292291	0.85[ASN][1000 genomes]
rs62292292	0.88[ASN][1000 genomes]
rs62292326	0.87[ASN][1000 genomes]
rs6769259	0.81[EUR][1000 genomes]
rs6780998	0.94[EUR][1000 genomes]
rs7622125	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7622865	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7639931	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7644566	0.84[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs7652322	0.89[ASN][1000 genomes]
rs7652473	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9290697	0.95[CEU][hapmap]
rs939440	0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs939441	0.86[CEU][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap]
rs939442	0.84[CHB][hapmap];0.80[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs9682110	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9683358	0.88[ASN][1000 genomes]
rs9815922	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9815923	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9818172	0.84[EUR][1000 genomes]
rs9819178	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9824544	0.84[EUR][1000 genomes]
rs9840477	0.86[ASN][1000 genomes]
rs9840775	0.86[ASN][1000 genomes]
rs9845934	0.95[CEU][hapmap]
rs9860526	0.86[ASN][1000 genomes]
rs9860910	0.84[EUR][1000 genomes]
rs9864534	0.80[EUR][1000 genomes]
rs9867767	0.83[ASN][1000 genomes]
rs9868908	0.81[EUR][1000 genomes]
rs9869517	0.87[ASN][1000 genomes]
rs9869873	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9871936	0.96[AFR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9877454	0.80[EUR][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	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv878040	chr3:179823887-180128288	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv997388	chr3:179899279-180172349	Enhancers Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv536817	chr3:179899279-180172349	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv878041	chr3:179983857-180097855	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:179979400-179985200	Weak transcription	HMEC	breast
2	chr3:179980600-179992400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:179982800-179984200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:179982800-179984800	Enhancers	Dnd41	blood
5	chr3:179983000-179985000	Weak transcription	NHDF-Ad	bronchial
6	chr3:179983200-179984800	Enhancers	GM12878-XiMat	blood
7	chr3:179983800-179984800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links