Variant report

Variant	rs4603997
Chromosome Location	chr3:98028996-98028997
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1008191	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1123188	0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11917362	0.80[AMR][1000 genomes]
rs11929098	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12631405	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12632368	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12632378	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12636571	0.82[AMR][1000 genomes]
rs12636942	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12637340	0.86[CHB][hapmap];0.80[AMR][1000 genomes]
rs12637378	0.84[AMR][1000 genomes]
rs12637769	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12638463	0.82[AMR][1000 genomes]
rs12638749	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12638827	0.80[AMR][1000 genomes]
rs12638881	0.82[AMR][1000 genomes]
rs12639159	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12639163	0.82[AMR][1000 genomes]
rs13066249	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13066311	0.80[AMR][1000 genomes]
rs13067366	0.82[AMR][1000 genomes]
rs13067773	0.85[ASN][1000 genomes]
rs13075581	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13079269	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13080412	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13086001	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13088051	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13096400	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1391156	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1497531	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1497532	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1587281	0.82[AMR][1000 genomes]
rs16839427	1.00[MEX][hapmap]
rs16839647	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1846081	0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1964019	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1964021	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2132898	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2316269	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs34156823	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs34298341	0.80[AMR][1000 genomes]
rs34721537	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs34829706	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35015849	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs35133117	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35370148	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35468350	0.85[ASN][1000 genomes]
rs35584221	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35807053	0.83[ASN][1000 genomes]
rs36064521	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3937916	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4061832	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4241472	0.86[CHB][hapmap]
rs4388016	0.84[AMR][1000 genomes]
rs4519740	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4857086	0.80[AMR][1000 genomes]
rs4857363	0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs56220142	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs57420324	0.81[AMR][1000 genomes]
rs59697145	0.85[AMR][1000 genomes]
rs62267258	0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6805802	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs71311371	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7613182	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7641621	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7641820	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs872002	0.82[AMR][1000 genomes]
rs924227	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9790053	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869347	chr3:97742604-98051633	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv877209	chr3:97806616-98049409	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv963576	chr3:97825434-98041343	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1004820	chr3:97852875-98169488	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv834773	chr3:97855362-98043888	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1000834	chr3:97859880-98095473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv877212	chr3:97931105-98033400	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	esv1842860	chr3:97934241-98075543	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv1009918	chr3:97946030-98155450	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4603997	OR5H6	cis	cerebellum	SCAN
rs4603997	ST3GAL6	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98028400-98039400	Weak transcription	H9 Cell Line	embryonic stem cell

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