Variant report

Variant	rs6810229
Chromosome Location	chr3:94970627-94970628
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:94969252..94971265-chr3:94976399..94979300,2	MCF-7	breast:

Extended variants
information (count: 143 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs1012061	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10428145	0.82[ASN][1000 genomes]
rs10428241	0.82[ASN][1000 genomes]
rs10511151	0.98[ASN][1000 genomes]
rs10933902	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10933932	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10933940	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10933941	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10933955	0.99[ASN][1000 genomes]
rs11708877	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11713740	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11719105	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11914749	0.88[ASN][1000 genomes]
rs11916841	0.82[ASN][1000 genomes]
rs11918082	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11918166	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11920130	0.91[ASN][1000 genomes]
rs11923227	0.80[ASN][1000 genomes]
rs11923257	0.80[ASN][1000 genomes]
rs11923716	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11924111	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11928664	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12486859	0.97[ASN][1000 genomes]
rs12495920	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12496724	0.99[ASN][1000 genomes]
rs12630013	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12630818	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12630859	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12631889	0.80[ASN][1000 genomes]
rs12634496	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12639003	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12695188	0.97[ASN][1000 genomes]
rs13064413	0.97[ASN][1000 genomes]
rs13065008	0.91[ASN][1000 genomes]
rs13065369	0.91[ASN][1000 genomes]
rs13066378	0.99[ASN][1000 genomes]
rs13070939	0.99[ASN][1000 genomes]
rs13071522	0.91[ASN][1000 genomes]
rs13073991	0.82[ASN][1000 genomes]
rs13074154	0.82[ASN][1000 genomes]
rs13076586	0.97[ASN][1000 genomes]
rs13078348	0.97[ASN][1000 genomes]
rs13081547	0.96[ASN][1000 genomes]
rs13087055	0.82[ASN][1000 genomes]
rs13091172	0.99[ASN][1000 genomes]
rs1356269	0.99[ASN][1000 genomes]
rs1356276	0.82[ASN][1000 genomes]
rs1356277	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1400296	0.82[ASN][1000 genomes]
rs1400301	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1400302	0.82[ASN][1000 genomes]
rs1400303	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1476323	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1516601	0.97[ASN][1000 genomes]
rs1516605	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1516606	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1516607	0.91[ASN][1000 genomes]
rs1519160	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1607487	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17383687	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17383861	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17384029	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17384064	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17442941	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17497733	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1914063	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1914064	0.89[ASN][1000 genomes]
rs1968016	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2048861	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2048863	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2176276	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2310403	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2310406	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2311285	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2311287	0.93[ASN][1000 genomes]
rs3849443	0.82[ASN][1000 genomes]
rs3905401	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3907753	0.82[ASN][1000 genomes]
rs3926894	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535228	0.99[ASN][1000 genomes]
rs4610223	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs478095	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs479964	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4857157	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4857159	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4857160	0.83[ASN][1000 genomes]
rs490921	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs509321	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs511189	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs533453	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs542297	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56233996	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57291530	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs575436	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58743887	0.80[ASN][1000 genomes]
rs58823483	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58977036	0.80[ASN][1000 genomes]
rs59007421	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59469832	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60875944	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61446477	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62269419	0.97[ASN][1000 genomes]
rs6774134	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786697	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6807708	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72615781	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72615782	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72615787	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72615791	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72618497	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72618498	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72618499	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72618500	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72620004	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72620005	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72620006	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72620007	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7429603	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7619484	0.98[ASN][1000 genomes]
rs7627614	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7634250	0.92[ASN][1000 genomes]
rs7639829	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs953342	0.82[ASN][1000 genomes]
rs9809394	0.99[ASN][1000 genomes]
rs9813568	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9826288	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9832182	0.99[ASN][1000 genomes]
rs9838302	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9847352	0.80[ASN][1000 genomes]
rs9855077	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9868858	0.80[ASN][1000 genomes]
rs9878073	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 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	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
5	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
6	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
7	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
8	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
9	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
10	nsv428091	chr3:94942642-95393754	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv428744	chr3:94960533-95145238	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6810229	OR5K2	cis	cerebellum	SCAN
rs6810229	OR5H6	cis	cerebellum	SCAN
rs6810229	OR5K1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:94970600-94971200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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