Variant report

Variant	rs7635409
Chromosome Location	chr3:51907736-51907737
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs11719470	0.86[AFR][1000 genomes]
rs12639503	0.88[CHD][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs1505404	0.83[ASN][1000 genomes]
rs1587922	0.86[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs1605069	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs1605070	0.86[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs1983106	0.89[JPT][hapmap]
rs2007607	0.89[JPT][hapmap]
rs2102297	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28481670	0.83[ASN][1000 genomes]
rs28799908	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28854335	0.84[EUR][1000 genomes]
rs4280629	0.82[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4295162	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4387956	0.83[ASN][1000 genomes]
rs4687602	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4687603	0.83[ASN][1000 genomes]
rs4687780	0.85[EUR][1000 genomes]
rs56204016	0.83[ASN][1000 genomes]
rs58932899	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6446041	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6762083	0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs6762371	0.89[JPT][hapmap]
rs6763197	0.89[JPT][hapmap]
rs6765123	0.85[EUR][1000 genomes]
rs6768073	0.83[ASN][1000 genomes]
rs6781310	0.85[EUR][1000 genomes]
rs6786848	0.86[JPT][hapmap]
rs6789601	1.00[CEU][hapmap]
rs6795223	0.89[JPT][hapmap]
rs6798175	0.83[ASN][1000 genomes]
rs6798914	0.82[JPT][hapmap]
rs6802583	0.89[JPT][hapmap]
rs6803994	0.85[EUR][1000 genomes]
rs6805324	0.88[CHD][hapmap];0.89[JPT][hapmap]
rs6805941	0.83[ASN][1000 genomes]
rs6809548	0.83[ASN][1000 genomes]
rs73838712	0.85[EUR][1000 genomes]
rs7615151	0.90[CEU][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7623760	1.00[CEU][hapmap];0.85[GIH][hapmap]
rs7629080	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7639080	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7639477	0.83[ASN][1000 genomes]
rs7644969	0.89[JPT][hapmap]
rs975258	1.00[CEU][hapmap];0.85[GIH][hapmap];0.85[EUR][1000 genomes]
rs9826967	0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs9831886	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9836804	0.83[ASN][1000 genomes]
rs9840833	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9846102	1.00[CEU][hapmap]
rs9853511	0.89[JPT][hapmap]
rs9856180	1.00[CEU][hapmap];0.85[GIH][hapmap]
rs9856660	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9857964	0.83[ASN][1000 genomes]
rs986539	0.89[JPT][hapmap]
rs9866552	0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs9867413	0.86[EUR][1000 genomes]
rs9869265	0.83[ASN][1000 genomes]
rs9874046	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9874547	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs9875459	0.94[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9876690	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9880628	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv520211	chr3:51772347-52166147	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv1012847	chr3:51811062-52056727	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
4	nsv536571	chr3:51811062-52056727	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7635409	DALRD3	cis	parietal	SCAN
rs7635409	CCDC36	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51905600-51911400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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