Variant report

Variant	rs6546824
Chromosome Location	chr2:73587331-73587332
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 12 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10165862	0.90[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10175529	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10206188	0.83[ASN][1000 genomes]
rs1083922	0.97[CHD][hapmap]
rs10865398	0.92[CHB][hapmap];0.97[CHD][hapmap]
rs11126395	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11126396	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11126399	0.90[CEU][hapmap];0.92[CHB][hapmap];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11693531	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11898362	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12465867	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.83[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1403412	1.00[CEU][hapmap];0.92[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1406105	0.83[CHB][hapmap];0.88[CHD][hapmap]
rs1522926	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1851546	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1852644	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1852647	0.92[CHB][hapmap]
rs1881246	0.92[CHB][hapmap]
rs1881247	0.91[CHB][hapmap]
rs2017116	0.92[CHB][hapmap]
rs2037814	0.92[CHB][hapmap];0.88[CHD][hapmap]
rs2091022	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2421489	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2421545	0.92[CHB][hapmap]
rs2421546	0.82[CEU][hapmap];0.92[CHB][hapmap]
rs2901437	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35885918	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3820700	0.92[CHB][hapmap];0.94[CHD][hapmap]
rs6546826	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6546827	0.89[CEU][hapmap];0.83[CHB][hapmap];0.81[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6546829	0.90[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6546832	0.92[CHB][hapmap]
rs6706235	0.90[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6706409	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap];0.95[TSI][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6710659	0.90[CEU][hapmap];0.92[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6716776	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6728128	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6747145	0.90[CEU][hapmap];0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6748040	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.88[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6749680	0.83[CHB][hapmap];0.97[CHD][hapmap]
rs7560272	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7567017	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7567343	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7573275	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7574291	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap]
rs7576824	0.90[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7598901	0.83[CHB][hapmap];0.91[CHD][hapmap]
rs7604588	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs780390	0.92[CHB][hapmap];0.94[CHD][hapmap]
rs780396	0.92[CHB][hapmap]

mRNA abundance (count:12)

SNP	Gene	Cis/trans	Tissue	Source
rs6546824	ALMS1	Cis_1M	lymphoblastoid	RTeQTL
rs6546824	ALMS1P	cis	Thyroid	GTEx
rs6546824	TPRKB	Cis_1M	lymphoblastoid	RTeQTL
rs6546824	ALMS1P	cis	Skin Sun Exposed Lower leg	GTEx
rs6546824	ALMS1P	cis	cerebellum	SCAN
rs6546824	ALMS1P	cis	parietal	SCAN
rs6546824	ALMS1	cis	parietal	SCAN
rs6546824	LRRTM4	cis	cerebellum	SCAN
rs6546824	ALMS1	cis	cerebellum	SCAN
rs6546824	PAIP2B	cis	cerebellum	SCAN
rs6546824	ALMS1P	cis	Whole Blood	GTEx
rs6546824	ALMS1	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:73587000-73587800	Enhancers	Pancreatic Islets	Pancreatic Islet

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