Variant report

Variant	rs12494376
Chromosome Location	chr3:94931399-94931400
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10933912	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10933932	0.87[EUR][1000 genomes]
rs10933941	0.80[EUR][1000 genomes]
rs11708513	0.88[ASN][1000 genomes]
rs11708909	0.88[ASN][1000 genomes]
rs11712473	0.88[ASN][1000 genomes]
rs11712965	0.88[ASN][1000 genomes]
rs11713390	0.88[ASN][1000 genomes]
rs11713846	0.88[ASN][1000 genomes]
rs11715007	0.90[ASN][1000 genomes]
rs11917495	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11918166	0.86[EUR][1000 genomes]
rs11921481	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11923675	0.90[ASN][1000 genomes]
rs11923716	0.87[EUR][1000 genomes]
rs11923738	0.90[ASN][1000 genomes]
rs11925057	0.90[ASN][1000 genomes]
rs12630013	0.80[EUR][1000 genomes]
rs12630859	0.80[EUR][1000 genomes]
rs12639003	0.80[EUR][1000 genomes]
rs17383687	0.81[EUR][1000 genomes]
rs17442941	0.81[EUR][1000 genomes]
rs2310402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2310403	0.87[EUR][1000 genomes]
rs2310406	0.87[EUR][1000 genomes]
rs3905401	0.83[EUR][1000 genomes]
rs4132577	0.94[ASN][1000 genomes]
rs4610223	0.87[EUR][1000 genomes]
rs4857019	0.88[ASN][1000 genomes]
rs4857020	0.88[ASN][1000 genomes]
rs4857157	0.81[EUR][1000 genomes]
rs57291530	0.80[EUR][1000 genomes]
rs58034501	0.83[ASN][1000 genomes]
rs58549043	0.88[ASN][1000 genomes]
rs59007421	0.80[EUR][1000 genomes]
rs61446477	0.81[EUR][1000 genomes]
rs67025604	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs67828560	0.87[ASN][1000 genomes]
rs72615787	0.81[EUR][1000 genomes]
rs72615791	0.87[EUR][1000 genomes]
rs72618498	0.80[EUR][1000 genomes]
rs72618499	0.80[EUR][1000 genomes]
rs72618500	0.80[EUR][1000 genomes]
rs7620908	0.88[ASN][1000 genomes]
rs7621233	0.85[ASN][1000 genomes]
rs7632132	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639829	0.80[EUR][1000 genomes]
rs7643795	0.88[ASN][1000 genomes]
rs9288845	0.88[ASN][1000 genomes]
rs9288846	0.88[ASN][1000 genomes]
rs9825156	0.84[ASN][1000 genomes]
rs9842570	0.88[ASN][1000 genomes]
rs9845130	0.87[ASN][1000 genomes]
rs9855703	0.88[ASN][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	nsv1013680	chr3:94777881-95538336	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv536653	chr3:94777881-95538336	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv877170	chr3:94790666-95564838	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv877172	chr3:94807394-94943493	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv999347	chr3:94832290-95177750	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv877174	chr3:94867122-94983900	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
7	esv2754985	chr3:94868320-94970627	Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
8	nsv877175	chr3:94869561-95210873	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1011235	chr3:94870789-95238299	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	esv2752668	chr3:94887527-94967365	Enhancers ZNF genes & repeats Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
11	esv2755718	chr3:94887527-94970627	Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
12	esv2754322	chr3:94913312-94967365	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:94931000-94932200	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr3:94931200-94932000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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