Variant report

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11127642	0.80[JPT][hapmap]
rs12629799	0.80[JPT][hapmap]
rs12630849	1.00[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.82[EUR][1000 genomes]
rs12633859	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs13067596	0.86[JPT][hapmap]
rs13073607	0.86[JPT][hapmap]
rs13084290	0.86[JPT][hapmap]
rs1489849	0.93[JPT][hapmap]
rs1546038	1.00[CHB][hapmap];0.83[CHD][hapmap];0.94[GIH][hapmap];0.93[JPT][hapmap]
rs2130376	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs2130377	0.86[JPT][hapmap]
rs35115214	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4411849	0.88[CHB][hapmap];0.93[JPT][hapmap]
rs6548616	0.93[JPT][hapmap]
rs66851083	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73129003	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73131030	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73131033	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73131045	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs964137	0.80[JPT][hapmap]
rs9832396	0.80[JPT][hapmap]
rs9842630	0.86[JPT][hapmap]
rs9843467	0.93[JPT][hapmap]
rs9855638	0.93[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3381015	chr3:79425678-79545174	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv998248	chr3:79426615-79554963	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv834747	chr3:79441211-79591923	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12635896	PTPRT	trans	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79529800-79531600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:79530000-79530800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:79530000-79530800	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:79530200-79530800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr3:79530200-79530800	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr3:79530200-79530800	Enhancers	Brain Germinal Matrix	brain
7	chr3:79530200-79531000	Enhancers	iPS-20b Cell Line	embryonic stem cell

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