Variant report

Variant	rs3905401
Chromosome Location	chr3:94891355-94891356
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:118)

rs_ID	r²[population]
rs1012061	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10511151	0.84[ASN][1000 genomes]
rs10933902	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10933912	0.86[EUR][1000 genomes]
rs10933932	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10933940	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10933941	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10933955	0.85[ASN][1000 genomes]
rs11708877	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11713740	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11719105	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11916841	0.95[ASN][1000 genomes]
rs11917495	0.86[EUR][1000 genomes]
rs11918082	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11918166	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11921481	0.86[EUR][1000 genomes]
rs11923227	0.93[ASN][1000 genomes]
rs11923257	0.93[ASN][1000 genomes]
rs11923716	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11924111	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11928664	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12486859	0.84[ASN][1000 genomes]
rs12494376	0.83[EUR][1000 genomes]
rs12495920	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12496724	0.86[ASN][1000 genomes]
rs12630013	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12630818	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12630859	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12631889	0.93[ASN][1000 genomes]
rs12634496	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12639003	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12695188	0.84[ASN][1000 genomes]
rs13064413	0.84[ASN][1000 genomes]
rs13066378	0.85[ASN][1000 genomes]
rs13070939	0.86[ASN][1000 genomes]
rs13076586	0.84[ASN][1000 genomes]
rs13078348	0.84[ASN][1000 genomes]
rs13081547	0.85[ASN][1000 genomes]
rs13091172	0.86[ASN][1000 genomes]
rs1356269	0.85[ASN][1000 genomes]
rs1476323	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1516601	0.84[ASN][1000 genomes]
rs1516605	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1516606	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1519160	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17383687	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17383861	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17384029	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17384064	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17442941	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17497733	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1914063	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1968016	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2048861	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2048863	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2176276	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2310402	0.83[EUR][1000 genomes]
rs2310403	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2310406	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2311285	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2311287	0.83[ASN][1000 genomes]
rs3849443	0.95[ASN][1000 genomes]
rs3907753	0.95[ASN][1000 genomes]
rs3926894	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4535228	0.85[ASN][1000 genomes]
rs4610223	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs478095	0.82[EUR][1000 genomes]
rs479964	0.82[EUR][1000 genomes]
rs4857157	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4857159	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs509321	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs511189	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs533453	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56233996	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57291530	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58743887	0.93[ASN][1000 genomes]
rs58823483	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58977036	0.93[ASN][1000 genomes]
rs59007421	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59469832	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60875944	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61446477	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62269419	0.84[ASN][1000 genomes]
rs67025604	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6774134	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6786697	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6807708	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6810229	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72615781	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72615782	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72615787	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72615791	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72618497	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72618498	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72618499	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72618500	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72620004	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72620005	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72620006	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72620007	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7429603	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7619484	0.84[ASN][1000 genomes]
rs7627614	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7628826	0.89[ASN][1000 genomes]
rs7632132	0.85[EUR][1000 genomes]
rs7634250	0.81[ASN][1000 genomes]
rs7639829	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9809394	0.85[ASN][1000 genomes]
rs9812403	0.87[ASN][1000 genomes]
rs9813568	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9826288	0.82[EUR][1000 genomes]
rs9832182	0.85[ASN][1000 genomes]
rs9838302	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9847352	0.93[ASN][1000 genomes]
rs9855077	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9864255	0.87[ASN][1000 genomes]
rs9868858	0.93[ASN][1000 genomes]
rs9878073	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 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	nsv877171	chr3:94797731-94909337	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	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
6	nsv877173	chr3:94813120-94904714	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	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
8	nsv460765	chr3:94837728-94904714	Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
9	nsv590994	chr3:94837728-94904714	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
10	nsv590995	chr3:94841342-94918524	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
11	nsv590996	chr3:94857157-94914290	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
12	nsv590997	chr3:94865957-94918524	Weak transcription Enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
13	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
14	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
15	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
16	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
17	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
18	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:94891000-94892000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:94891200-94891800	Enhancers	HUES48 Cell Line	embryonic stem cell

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