Variant report

Variant	rs2769417
Chromosome Location	chr10:117398195-117398196
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 79 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10082389	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10787577	0.83[CEU][hapmap];0.87[GIH][hapmap];0.87[MEX][hapmap];0.92[TSI][hapmap]
rs10885736	0.85[CEU][hapmap]
rs10885745	0.83[CEU][hapmap];0.81[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10885761	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10885763	0.81[ASN][1000 genomes]
rs11197267	0.83[CEU][hapmap]
rs11197281	0.83[CEU][hapmap]
rs11197283	0.83[CEU][hapmap];0.87[YRI][hapmap]
rs11197292	0.86[CEU][hapmap]
rs11197297	0.82[CEU][hapmap]
rs11197327	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11197377	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11197398	0.81[ASN][1000 genomes]
rs11591491	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11599485	0.83[CEU][hapmap]
rs12252303	0.83[CEU][hapmap];0.87[GIH][hapmap];0.83[MEX][hapmap];0.90[TSI][hapmap]
rs12360040	0.83[CEU][hapmap]
rs1328011	0.83[CEU][hapmap]
rs1336105	0.83[CEU][hapmap]
rs1336107	0.82[CEU][hapmap];0.80[YRI][hapmap]
rs1336111	0.83[CEU][hapmap];0.87[YRI][hapmap]
rs1336114	0.83[CEU][hapmap]
rs1336115	0.83[CEU][hapmap];0.87[GIH][hapmap];0.92[MEX][hapmap];0.91[MKK][hapmap];0.92[TSI][hapmap];0.81[YRI][hapmap]
rs1336118	0.83[CEU][hapmap]
rs1414633	0.83[CEU][hapmap]
rs1414635	0.83[CEU][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.92[TSI][hapmap];0.87[YRI][hapmap]
rs1414640	0.83[CEU][hapmap];0.81[YRI][hapmap]
rs1572397	0.83[CEU][hapmap]
rs1572400	0.81[TSI][hapmap]
rs1572402	0.83[CEU][hapmap]
rs1572403	0.85[CEU][hapmap];0.93[YRI][hapmap]
rs1590734	0.80[MKK][hapmap]
rs1927479	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1932582	0.83[CEU][hapmap];0.87[GIH][hapmap];0.87[MEX][hapmap];0.91[MKK][hapmap];0.92[TSI][hapmap];0.81[YRI][hapmap]
rs2065824	0.83[CEU][hapmap]
rs2065827	0.83[CEU][hapmap];0.81[YRI][hapmap]
rs2209850	0.83[ASW][hapmap];0.83[CEU][hapmap];0.86[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.87[YRI][hapmap]
rs2225799	0.83[CEU][hapmap]
rs2245045	0.83[CEU][hapmap];0.81[YRI][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2420088	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2420098	0.89[LWK][hapmap];0.82[MKK][hapmap]
rs2532733	0.81[ASN][1000 genomes]
rs2769374	0.84[CEU][hapmap];0.93[YRI][hapmap]
rs2769378	0.80[MKK][hapmap]
rs2769379	0.83[CEU][hapmap]
rs2769383	0.83[CEU][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2769389	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2769407	0.83[CEU][hapmap];0.87[GIH][hapmap];0.84[LWK][hapmap];0.92[MEX][hapmap];0.93[MKK][hapmap];0.92[TSI][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2769422	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.87[MEX][hapmap];0.95[MKK][hapmap];0.97[TSI][hapmap];0.87[YRI][hapmap]
rs2784801	0.87[CEU][hapmap]
rs2784803	0.82[CEU][hapmap]
rs2784810	0.83[CEU][hapmap];0.87[YRI][hapmap]
rs2804145	0.86[YRI][hapmap]
rs2804176	0.84[GIH][hapmap];0.84[LWK][hapmap];0.87[TSI][hapmap]
rs2804194	0.82[CEU][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2804199	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2804207	0.89[LWK][hapmap]
rs2804210	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2804235	0.83[ASW][hapmap];0.83[CEU][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.92[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2804237	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2804246	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs2804249	0.82[LWK][hapmap];0.84[MKK][hapmap]
rs2804250	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4306223	0.83[CEU][hapmap]
rs4751921	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4751922	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6585337	0.83[CEU][hapmap];0.87[YRI][hapmap]
rs7072548	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7075401	0.83[CEU][hapmap]
rs7078828	0.83[CEU][hapmap];0.80[GIH][hapmap];0.84[LWK][hapmap];0.87[MEX][hapmap];0.92[TSI][hapmap]
rs7085497	0.83[CEU][hapmap]
rs7086325	0.83[CEU][hapmap]
rs7098660	0.83[CEU][hapmap];0.85[GIH][hapmap];0.83[MEX][hapmap];0.90[TSI][hapmap]
rs72641352	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7895853	0.83[CEU][hapmap];0.83[MEX][hapmap];0.90[TSI][hapmap]
rs7899493	0.83[CEU][hapmap]
rs7906146	0.83[CEU][hapmap];0.90[TSI][hapmap]
rs7907186	0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2769417	EMX2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117396000-117399200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr10:117397800-117399000	Enhancers	HSMM	muscle
3	chr10:117398000-117398600	Enhancers	Muscle Satellite Cultured Cells	--

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