Variant report

Variant	rs2712794
Chromosome Location	chr11:74842779-74842780
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10899075	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs1944614	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1944616	0.88[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2018251	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2712786	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2712788	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2712793	0.82[ASN][1000 genomes]
rs2712795	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2712797	0.87[CHB][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2712799	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2712800	0.89[CHB][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap];0.83[MEX][hapmap];0.83[ASN][1000 genomes]
rs2712801	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs2712809	0.85[JPT][hapmap]
rs2712811	0.85[JPT][hapmap]
rs2712818	0.85[CEU][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2851069	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs2851071	0.85[JPT][hapmap]
rs2851072	0.85[JPT][hapmap]
rs2851076	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851077	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851078	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851079	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2851080	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851081	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851082	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851084	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851086	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2851093	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2851095	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2851097	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2851103	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs2851104	0.82[CHB][hapmap];0.85[JPT][hapmap];0.88[MEX][hapmap];0.80[ASN][1000 genomes]
rs2851105	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4435030	0.94[CHB][hapmap];0.85[JPT][hapmap];0.84[MEX][hapmap]
rs870505	0.88[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs870506	0.89[CHB][hapmap];0.85[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs875482	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs949071	0.83[EUR][1000 genomes];0.88[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	esv3478707	chr11:74782633-74842791	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
2	esv3478718	chr11:74782633-74842791	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs2712794	FCHSD2	cis	cerebellum	SCAN
rs2712794	XRRA1	cis	lymphoblastoid	seeQTL
rs2712794	XRRA1	cis	cerebellum	SCAN
rs2712794	XRRA1	cis	parietal	SCAN
rs2712794	FMN2	trans	cerebellum	SCAN
rs2712794	INPPL1	cis	parietal	SCAN
rs2712794	THRSP	cis	parietal	SCAN
rs2712794	RNF169	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74842000-74851400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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