Variant report

Variant	rs12729268
Chromosome Location	chr1:71637601-71637602
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs1009311	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10399704	0.80[AMR][1000 genomes]
rs10399705	0.80[AMR][1000 genomes]
rs10399706	0.80[AMR][1000 genomes]
rs10399797	0.81[AMR][1000 genomes]
rs10493481	0.93[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11209736	0.80[AMR][1000 genomes]
rs11209739	0.81[AMR][1000 genomes]
rs11209740	0.81[AMR][1000 genomes]
rs11209743	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11209745	0.86[JPT][hapmap]
rs11209747	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11209756	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11209757	0.89[ASN][1000 genomes]
rs11209761	0.84[ASN][1000 genomes]
rs11209762	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11811835	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12084460	0.86[JPT][hapmap]
rs12118599	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12119958	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12131265	1.00[CHB][hapmap];0.93[JPT][hapmap];0.89[YRI][hapmap]
rs12139565	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12139719	0.80[AMR][1000 genomes]
rs12139935	0.80[AMR][1000 genomes]
rs12140289	0.80[EUR][1000 genomes]
rs12737582	0.84[ASN][1000 genomes]
rs12739047	0.80[AMR][1000 genomes]
rs12739685	0.81[AMR][1000 genomes]
rs12744775	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12748649	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12756951	0.80[AMR][1000 genomes]
rs1367767	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1395289	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1418449	0.96[ASN][1000 genomes]
rs1546809	0.96[ASN][1000 genomes]
rs1573061	1.00[ASN][1000 genomes]
rs1832900	0.94[ASN][1000 genomes]
rs1954285	1.00[ASN][1000 genomes]
rs2066371	1.00[ASN][1000 genomes]
rs2066373	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2300178	0.81[AMR][1000 genomes]
rs2639329	1.00[ASN][1000 genomes]
rs2639330	0.96[ASN][1000 genomes]
rs2639331	0.91[ASN][1000 genomes]
rs2639335	1.00[ASN][1000 genomes]
rs2639338	1.00[ASN][1000 genomes]
rs2694954	0.96[ASN][1000 genomes]
rs2790675	0.96[ASN][1000 genomes]
rs2796187	0.98[ASN][1000 genomes]
rs2796188	0.98[ASN][1000 genomes]
rs2796189	0.98[ASN][1000 genomes]
rs2796190	0.98[ASN][1000 genomes]
rs2796192	0.96[ASN][1000 genomes]
rs2796196	0.92[ASN][1000 genomes]
rs2796199	0.86[JPT][hapmap]
rs2796201	1.00[ASN][1000 genomes]
rs2796202	1.00[ASN][1000 genomes]
rs2796203	1.00[CHB][hapmap];0.93[JPT][hapmap];0.98[ASN][1000 genomes]
rs2817869	0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4128461	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4272572	0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs4367753	0.92[ASN][1000 genomes]
rs4397614	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4425938	1.00[ASN][1000 genomes]
rs4520371	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4650099	0.85[EUR][1000 genomes]
rs4650100	0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs6680193	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs7411	0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs7516464	0.86[JPT][hapmap]
rs7519104	0.87[JPT][hapmap]
rs7525499	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7556111	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8179367	0.80[AMR][1000 genomes]
rs8179408	0.81[AMR][1000 genomes]
rs880098	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs952337	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870650	chr1:71590877-71642977	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv997782	chr1:71628776-71668906	Enhancers Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12729268	PTGER3	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:71625400-71637800	Weak transcription	Pancreas	Pancrea
2	chr1:71636200-71638600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr1:71637200-71639400	Weak transcription	Ovary	ovary

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