Variant report

Variant	rs6936790
Chromosome Location	chr6:119707418-119707419
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1028327	0.81[ASN][1000 genomes]
rs1028328	0.81[ASN][1000 genomes]
rs10457355	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[YRI][hapmap];0.81[ASN][1000 genomes]
rs10485001	0.84[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap]
rs10872173	0.81[ASN][1000 genomes]
rs11153800	1.00[CHB][hapmap]
rs11751945	1.00[CHB][hapmap]
rs11755967	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs11759899	0.84[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap]
rs11962938	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs12199883	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12200554	0.81[ASN][1000 genomes]
rs12205826	1.00[CHB][hapmap]
rs12206472	0.92[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs12524617	0.81[ASN][1000 genomes]
rs12527126	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12527248	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1295383	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1295384	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1295388	0.81[ASN][1000 genomes]
rs1797067	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2036257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2092218	0.81[ASN][1000 genomes]
rs2144236	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35305935	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4607463	0.81[ASN][1000 genomes]
rs6569056	0.81[ASN][1000 genomes]
rs6569057	0.81[ASN][1000 genomes]
rs6569072	0.83[CEU][hapmap];0.81[ASN][1000 genomes]
rs6569076	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918913	1.00[CHB][hapmap]
rs6920832	0.81[ASN][1000 genomes]
rs6932241	0.81[ASN][1000 genomes]
rs6932292	0.81[ASN][1000 genomes]
rs6935126	0.92[CEU][hapmap];1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs6936020	0.83[AMR][1000 genomes]
rs73529045	0.81[ASN][1000 genomes]
rs73529086	0.81[ASN][1000 genomes]
rs7745295	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7745633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754482	0.92[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs7763569	0.81[ASN][1000 genomes]
rs7767198	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs926859	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs9320689	0.94[EUR][1000 genomes]
rs9320690	0.80[EUR][1000 genomes]
rs9374795	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374796	0.80[EUR][1000 genomes]
rs9489697	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv1025995	chr6:119407742-119709548	Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6936790	FAM162B	cis	cerebellum	SCAN
rs6936790	GPRC6A	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119689600-119720600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:119703000-119709400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr6:119705800-119708400	ZNF genes & repeats	Primary hematopoietic stem cells	blood

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