Variant report

Variant	rs6984260
Chromosome Location	chr8:102817593-102817594
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 100 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs1073373	0.83[CEU][hapmap]
rs1074703	0.86[EUR][1000 genomes]
rs10808378	0.82[CEU][hapmap]
rs10808379	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs10955274	0.82[CEU][hapmap]
rs1111886	0.82[CEU][hapmap];0.84[CHD][hapmap];0.80[TSI][hapmap]
rs1144545	0.87[CEU][hapmap]
rs1148497	0.87[CEU][hapmap]
rs1148499	0.87[CEU][hapmap]
rs11782123	0.82[CEU][hapmap]
rs12334693	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12544026	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12545537	0.80[CHD][hapmap]
rs1264930	1.00[CEU][hapmap]
rs1264931	0.88[CEU][hapmap]
rs1264933	0.88[CEU][hapmap]
rs12677525	0.83[CEU][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.90[TSI][hapmap];0.84[EUR][1000 genomes]
rs13251735	0.88[CEU][hapmap];0.90[TSI][hapmap];0.92[EUR][1000 genomes]
rs13255004	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1557336	0.83[CEU][hapmap]
rs17406994	0.88[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];0.81[LWK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1893366	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2155938	1.00[CEU][hapmap]
rs2155939	0.88[CEU][hapmap]
rs2155940	0.92[CEU][hapmap]
rs2155941	0.92[CEU][hapmap]
rs2155942	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs2155943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2226724	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2226725	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28837777	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2892324	0.85[CEU][hapmap]
rs4576401	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs472638	0.87[CEU][hapmap]
rs472963	0.87[CEU][hapmap]
rs4734593	0.84[CHD][hapmap]
rs4734595	0.83[CEU][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.90[TSI][hapmap];0.83[YRI][hapmap]
rs4734596	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4734597	0.83[EUR][1000 genomes]
rs478917	0.87[CEU][hapmap]
rs479041	0.87[CEU][hapmap]
rs480570	0.87[CEU][hapmap]
rs481545	0.87[CEU][hapmap]
rs482023	0.83[CEU][hapmap]
rs486196	0.82[CEU][hapmap]
rs487863	0.83[CEU][hapmap]
rs488034	0.87[CEU][hapmap]
rs489973	0.87[CEU][hapmap]
rs494352	0.82[CEU][hapmap]
rs495636	0.87[CEU][hapmap]
rs513472	0.87[CEU][hapmap]
rs517868	0.83[CEU][hapmap]
rs519197	0.87[CEU][hapmap]
rs520880	0.87[CEU][hapmap]
rs529684	0.87[CEU][hapmap]
rs531624	0.87[CEU][hapmap]
rs540459	0.87[CEU][hapmap]
rs549281	0.87[CEU][hapmap]
rs550281	0.83[CEU][hapmap]
rs551295	0.83[CEU][hapmap]
rs562037	0.86[CEU][hapmap]
rs563463	0.87[CEU][hapmap]
rs566315	0.87[CEU][hapmap]
rs566392	0.87[CEU][hapmap]
rs568194	0.87[CEU][hapmap]
rs569015	0.87[CEU][hapmap]
rs569787	0.85[CEU][hapmap]
rs577756	0.87[CEU][hapmap]
rs6468793	0.83[CEU][hapmap];0.83[YRI][hapmap];0.84[EUR][1000 genomes]
rs6468794	0.83[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6468795	0.88[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6468796	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6468798	0.83[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6468799	0.88[ASW][hapmap];0.83[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.83[GIH][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6468801	0.82[MEX][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs6991592	0.88[CEU][hapmap]
rs6993577	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7000357	0.84[CEU][hapmap];0.86[EUR][1000 genomes]
rs7008826	0.84[CHD][hapmap];0.80[TSI][hapmap]
rs7011941	0.84[CEU][hapmap];0.86[EUR][1000 genomes]
rs7012512	1.00[ASW][hapmap];0.86[CEU][hapmap];0.92[CHD][hapmap];0.83[GIH][hapmap];0.91[LWK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7015311	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7017754	0.82[CEU][hapmap]
rs7813132	0.95[CEU][hapmap];0.90[TSI][hapmap];0.95[EUR][1000 genomes]
rs7827304	0.91[CEU][hapmap];0.95[EUR][1000 genomes]
rs7827691	0.88[CEU][hapmap];0.90[EUR][1000 genomes]
rs7827941	1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs7828175	0.92[CEU][hapmap]
rs7828516	0.88[CEU][hapmap]
rs7829693	0.92[CEU][hapmap]
rs7835223	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs7835485	0.83[CEU][hapmap]
rs7838696	0.88[CEU][hapmap];0.96[EUR][1000 genomes]
rs7840760	0.92[CEU][hapmap]
rs8181022	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8181025	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs9297313	0.88[CEU][hapmap]
rs9693504	0.82[CEU][hapmap]

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	esv3386722	chr8:102815776-102817924	ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv3405995	chr8:102816276-102817624	Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6984260	FOXL1	trans	parietal	SCAN
rs6984260	C8orf56	cis	parietal	SCAN
rs6984260	NCALD	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:102803200-102817800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr8:102803600-102870600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr8:102816400-102817600	Weak transcription	Ovary	ovary
4	chr8:102816800-102818800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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