Variant report

Variant	rs4559158
Chromosome Location	chr7:146879634-146879635
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10085697	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.87[TSI][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1018073	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1018074	0.87[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs10240438	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs10255525	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs10261858	0.85[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap]
rs10263495	0.95[JPT][hapmap]
rs10266913	0.82[CHB][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.80[TSI][hapmap]
rs10268252	0.88[CHD][hapmap];0.95[JPT][hapmap];0.90[MEX][hapmap]
rs10273775	0.82[CHB][hapmap];0.93[CHD][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs10274224	0.92[CEU][hapmap];0.91[CHB][hapmap];0.89[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10274399	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10276955	0.85[CEU][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.87[TSI][hapmap];0.85[EUR][1000 genomes]
rs10278454	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs10279761	0.83[ASN][1000 genomes]
rs10500171	0.91[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs10952672	0.84[CEU][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10952673	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10952674	0.82[CEU][hapmap];0.87[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap]
rs12532448	0.83[CEU][hapmap];0.89[JPT][hapmap];0.81[EUR][1000 genomes]
rs12666338	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[GIH][hapmap];0.95[JPT][hapmap];0.88[MKK][hapmap]
rs12670106	0.80[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap]
rs12671954	0.84[CEU][hapmap];0.82[CHB][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes]
rs12703883	0.88[ASN][1000 genomes]
rs1390717	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs1390718	0.95[JPT][hapmap]
rs1496536	0.89[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap]
rs1496537	0.89[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap]
rs1496539	0.85[CEU][hapmap]
rs1496540	0.86[ASN][1000 genomes]
rs1496541	0.87[CHB][hapmap];0.90[JPT][hapmap]
rs1496542	0.87[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap]
rs1826843	0.85[CEU][hapmap];0.87[CHB][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap]
rs1908765	0.87[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap]
rs2888441	0.83[ASN][1000 genomes]
rs3807570	0.90[JPT][hapmap];0.81[MEX][hapmap];0.81[TSI][hapmap]
rs4146047	0.90[JPT][hapmap]
rs4512308	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4725704	0.89[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs4725706	0.81[AMR][1000 genomes]
rs4726818	0.89[JPT][hapmap]
rs4726822	0.92[CEU][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.82[TSI][hapmap]
rs62481835	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6954110	0.88[ASN][1000 genomes]
rs6959187	0.88[CEU][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs6961500	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs6965650	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs6974986	0.88[ASN][1000 genomes]
rs7385969	0.81[CEU][hapmap];0.90[JPT][hapmap]
rs7783508	0.83[ASN][1000 genomes]
rs7789511	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs7791332	0.92[CEU][hapmap];0.94[JPT][hapmap]
rs7792380	0.88[CEU][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.80[TSI][hapmap]
rs7795067	0.87[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs7799140	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs7801686	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs7805359	0.87[CHB][hapmap];0.85[CHD][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7806761	0.89[JPT][hapmap]
rs7807716	0.84[CEU][hapmap];0.87[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs903898	0.95[JPT][hapmap]
rs903900	0.89[CEU][hapmap];0.87[CHB][hapmap];0.86[CHD][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap]
rs924147	0.93[JPT][hapmap]
rs9640235	0.80[CEU][hapmap]
rs9640492	0.83[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.80[TSI][hapmap]
rs9640495	0.90[ASN][1000 genomes]
rs987419	0.87[CHB][hapmap];0.95[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933033	chr7:146720301-147081560	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1033898	chr7:146721499-147081768	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv931005	chr7:146730472-147381257	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv889395	chr7:146848251-146969389	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv889396	chr7:146854133-147035067	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4559158	OR2A5	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:146879600-146880800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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