Variant report

Variant	rs9953981
Chromosome Location	chr18:28880539-28880540
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10163619	0.82[EUR][1000 genomes]
rs10164077	0.82[EUR][1000 genomes]
rs10438909	0.86[EUR][1000 genomes]
rs10438930	0.86[EUR][1000 genomes]
rs11081690	0.82[EUR][1000 genomes]
rs11081691	0.81[EUR][1000 genomes]
rs1154850	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1154851	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11660608	0.82[EUR][1000 genomes]
rs11661048	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11661104	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11663622	0.82[EUR][1000 genomes]
rs11663676	0.82[EUR][1000 genomes]
rs11663924	0.91[AMR][1000 genomes]
rs11872734	0.82[EUR][1000 genomes]
rs11873223	0.81[AMR][1000 genomes]
rs11873281	0.91[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11875510	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11875560	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11876962	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12607370	0.86[EUR][1000 genomes]
rs12962355	0.86[EUR][1000 genomes]
rs12963302	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12967407	0.82[EUR][1000 genomes]
rs1426310	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1426311	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1834582	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1895902	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2007149	0.82[EUR][1000 genomes]
rs2114269	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2162273	0.81[EUR][1000 genomes]
rs2199301	0.82[EUR][1000 genomes]
rs2219582	0.82[EUR][1000 genomes]
rs2219583	0.82[EUR][1000 genomes]
rs2901124	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2901125	0.82[EUR][1000 genomes]
rs34248946	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35223713	0.91[AMR][1000 genomes]
rs35257361	0.82[EUR][1000 genomes]
rs35382145	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4356544	0.86[EUR][1000 genomes]
rs4598984	0.82[AMR][1000 genomes]
rs55778425	0.90[AMR][1000 genomes]
rs55965644	0.91[AMR][1000 genomes]
rs56088904	0.87[AMR][1000 genomes]
rs62088675	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62090169	0.86[EUR][1000 genomes]
rs6506912	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6506915	0.86[EUR][1000 genomes]
rs6506916	0.86[EUR][1000 genomes]
rs7227412	0.91[AMR][1000 genomes]
rs7229763	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7229799	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7230092	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7231346	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7231775	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7234662	0.86[EUR][1000 genomes]
rs7234854	0.86[EUR][1000 genomes]
rs7235354	0.86[EUR][1000 genomes]
rs7235951	0.82[EUR][1000 genomes]
rs7235975	0.82[EUR][1000 genomes]
rs7236225	0.82[EUR][1000 genomes]
rs7236309	0.86[EUR][1000 genomes]
rs7236370	0.82[EUR][1000 genomes]
rs7237370	0.81[EUR][1000 genomes]
rs7237383	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7237419	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7241874	0.91[AMR][1000 genomes]
rs7244719	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7245063	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs765054	0.82[EUR][1000 genomes]
rs8087410	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8087621	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8088418	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8091151	0.82[EUR][1000 genomes]
rs8091579	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8091847	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8091934	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8092044	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9944661	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9947296	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9947444	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9950209	0.82[EUR][1000 genomes]
rs9950622	0.82[EUR][1000 genomes]
rs9952617	0.83[EUR][1000 genomes]
rs9953985	0.85[EUR][1000 genomes]
rs9954315	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9955239	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9955289	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9956026	0.82[EUR][1000 genomes]
rs9959406	0.86[EUR][1000 genomes]
rs9962740	0.82[EUR][1000 genomes]
rs9966267	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9967293	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1066692	chr18:28856066-29190505	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv543674	chr18:28856066-29190505	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	esv3422577	chr18:28862003-28881811	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28877000-28883600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr18:28877600-28880600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr18:28877600-28880600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr18:28877600-28880800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr18:28877800-28880600	Weak transcription	NHEK	skin
6	chr18:28879800-28881000	Weak transcription	HUVEC	blood vessel
7	chr18:28880000-28882400	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr18:28880200-28880600	Weak transcription	Placenta	Placenta
9	chr18:28880200-28881200	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr18:28880200-28882000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr18:28880200-28882400	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr18:28880400-28881200	Enhancers	Stomach Mucosa	stomach
13	chr18:28880400-28882000	Enhancers	H1 Cell Line	embryonic stem cell
14	chr18:28880400-28882000	Enhancers	Fetal Muscle Leg	muscle
15	chr18:28880400-28882600	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr18:28880400-28882600	Enhancers	H9 Cell Line	embryonic stem cell
17	chr18:28880400-28884600	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links