Variant report

Variant	rs3846563
Chromosome Location	chr5:27328679-27328680
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10058813	0.97[EUR][1000 genomes]
rs12153780	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12188151	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1382909	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16896634	0.96[EUR][1000 genomes]
rs16896639	1.00[EUR][1000 genomes]
rs16896645	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16896651	1.00[EUR][1000 genomes]
rs16896657	1.00[EUR][1000 genomes]
rs16896665	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16896676	0.97[EUR][1000 genomes]
rs16899573	0.96[EUR][1000 genomes]
rs1993951	1.00[EUR][1000 genomes]
rs1993952	1.00[EUR][1000 genomes]
rs34502	0.97[EUR][1000 genomes]
rs3966086	1.00[EUR][1000 genomes]
rs4367261	1.00[EUR][1000 genomes]
rs73065921	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73065935	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73065948	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73067906	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73746095	0.89[EUR][1000 genomes]
rs73746096	0.93[EUR][1000 genomes]
rs73746097	1.00[EUR][1000 genomes]
rs73746098	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73746099	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73746100	0.93[EUR][1000 genomes]
rs7701855	1.00[EUR][1000 genomes]
rs7716017	0.97[EUR][1000 genomes]
rs7716845	1.00[EUR][1000 genomes]
rs7718306	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881286	chr5:27135351-27770554	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv880298	chr5:27193573-27659111	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv880326	chr5:27193573-27743375	Transcr. at gene 5' and 3' Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv881387	chr5:27264941-27373862	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv880623	chr5:27279981-27559659	Enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv880525	chr5:27308254-27447863	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv880974	chr5:27308663-27357356	Flanking Active TSS Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
8	nsv1029060	chr5:27313831-27411288	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
9	nsv881318	chr5:27323746-27559659	Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	nsv1034704	chr5:27324221-27410790	Enhancers Weak transcription Active TSS Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
11	nsv1022838	chr5:27324221-27411288	Enhancers Active TSS Strong transcription Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
12	nsv880317	chr5:27328631-27447863	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:27316800-27329600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:27328400-27329000	Enhancers	HMEC	breast
3	chr5:27328400-27329200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr5:27328400-27329200	Enhancers	Muscle Satellite Cultured Cells	--
5	chr5:27328600-27329200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr5:27328600-27329200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links