Variant report

Variant	rs12404334
Chromosome Location	chr1:103325774-103325775
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10430072	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10735776	0.81[EUR][1000 genomes]
rs10747431	0.81[EUR][1000 genomes]
rs10782909	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10782910	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10782911	0.89[ASN][1000 genomes]
rs10874660	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10874661	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11164628	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11164629	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11164630	0.84[CEU][hapmap];0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11164632	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11164633	0.82[EUR][1000 genomes]
rs12023984	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12132471	0.80[EUR][1000 genomes]
rs12133652	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12136992	0.80[EUR][1000 genomes]
rs12144719	0.83[EUR][1000 genomes]
rs12406439	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12410008	0.87[EUR][1000 genomes]
rs1241171	0.87[ASN][1000 genomes]
rs1241187	0.87[ASN][1000 genomes]
rs1241196	0.87[ASN][1000 genomes]
rs1241201	0.87[ASN][1000 genomes]
rs1241202	0.87[ASN][1000 genomes]
rs1241206	0.83[ASN][1000 genomes]
rs1241209	0.83[ASN][1000 genomes]
rs1270748	0.87[ASN][1000 genomes]
rs12722976	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs1318755	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1463048	0.92[CEU][hapmap];0.86[CHB][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1599703	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1599706	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1763348	0.86[ASN][1000 genomes]
rs1839632	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1841841	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1932331	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1932341	0.81[EUR][1000 genomes]
rs1932350	0.91[CEU][hapmap];0.84[CHB][hapmap]
rs2077569	0.87[EUR][1000 genomes]
rs2086014	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2169608	0.92[CEU][hapmap];0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2169609	0.92[CEU][hapmap];0.91[CHB][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2169610	0.83[ASN][1000 genomes]
rs2229783	0.92[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2376259	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2616003	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs34689850	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3753841	0.88[CEU][hapmap]
rs4590689	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4908262	0.81[EUR][1000 genomes]
rs61157885	0.86[ASN][1000 genomes]
rs61812153	0.81[EUR][1000 genomes]
rs644019	0.87[ASN][1000 genomes]
rs7521799	0.81[EUR][1000 genomes]
rs921416	0.81[EUR][1000 genomes]
rs945326	0.92[CEU][hapmap];0.90[CHB][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9659030	0.85[LWK][hapmap]
rs9787064	0.80[EUR][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	nsv830882	chr1:103192683-103355802	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv522922	chr1:103305021-103764640	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12404334	OLFM3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:103324800-103334200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:103325000-103326600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr1:103325000-103327800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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