Variant report

Variant	rs9682108
Chromosome Location	chr3:113240667-113240668
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs11914782	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes]
rs11919031	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs11924017	0.91[ASN][1000 genomes]
rs11927007	0.84[EUR][1000 genomes]
rs11929418	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes]
rs12695292	0.91[ASN][1000 genomes]
rs1463641	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes]
rs1463642	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs16845107	0.82[CEU][hapmap];0.92[CHB][hapmap];0.82[JPT][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16860847	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.80[EUR][1000 genomes]
rs16860861	0.84[EUR][1000 genomes]
rs16860919	0.86[EUR][1000 genomes]
rs16861130	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs16861157	0.91[ASN][1000 genomes]
rs16861165	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs2007579	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254267	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs2399483	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399486	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs2895414	0.91[ASN][1000 genomes]
rs3732799	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs3732807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes]
rs3732808	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes]
rs3732810	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs3912553	0.86[EUR][1000 genomes]
rs4103250	0.86[EUR][1000 genomes]
rs4331647	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs4508746	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs4580515	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs4621301	0.91[ASN][1000 genomes]
rs56794625	0.84[EUR][1000 genomes]
rs57566915	0.86[EUR][1000 genomes]
rs58686141	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58884094	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58918720	0.84[EUR][1000 genomes]
rs59048818	0.86[EUR][1000 genomes]
rs59631554	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59666592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60079554	0.84[EUR][1000 genomes]
rs60264945	0.86[EUR][1000 genomes]
rs60706093	0.84[EUR][1000 genomes]
rs60874496	0.84[EUR][1000 genomes]
rs6438139	0.84[EUR][1000 genomes]
rs6764524	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs6766534	0.91[ASN][1000 genomes]
rs6769995	0.91[ASN][1000 genomes]
rs6771864	0.91[ASN][1000 genomes]
rs6776729	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs6776974	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs6780604	0.91[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs6780755	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs6782784	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs6790846	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs6792091	0.86[EUR][1000 genomes]
rs6794923	0.84[EUR][1000 genomes]
rs6795288	0.84[EUR][1000 genomes]
rs6805231	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs6807610	0.91[ASN][1000 genomes]
rs6808878	0.84[EUR][1000 genomes]
rs72946779	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72950827	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7429847	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs7612047	0.91[ASN][1000 genomes]
rs7614678	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs7618598	0.84[EUR][1000 genomes]
rs7618941	0.84[EUR][1000 genomes]
rs7620700	0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs7621337	0.84[EUR][1000 genomes]
rs7622952	0.84[EUR][1000 genomes]
rs7623213	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[EUR][1000 genomes]
rs7627145	0.84[EUR][1000 genomes]
rs7629899	0.84[EUR][1000 genomes]
rs7632927	0.84[EUR][1000 genomes]
rs7634526	1.00[CEU][hapmap];0.92[CHB][hapmap];0.80[JPT][hapmap]
rs7634713	0.86[EUR][1000 genomes]
rs7636912	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7636986	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs7640376	0.84[EUR][1000 genomes]
rs7646262	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs7648620	0.84[EUR][1000 genomes]
rs7650500	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs7650771	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes]
rs7653791	0.91[ASN][1000 genomes]
rs9848190	0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs9852064	0.91[ASN][1000 genomes]
rs9854538	0.91[ASN][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	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv1004000	chr3:113116778-113513899	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv877349	chr3:113208224-113323787	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
4	nsv877350	chr3:113208224-113332235	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9682108	CCDC52	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113240600-113242000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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