Variant report

Variant	rs1925340
Chromosome Location	chr1:173509365-173509366
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1024266	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10798282	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs10798283	0.92[AMR][1000 genomes]
rs10798295	0.82[CHB][hapmap]
rs10912617	0.91[CHB][hapmap]
rs10912618	0.91[CHB][hapmap]
rs10912621	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10912625	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10912626	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs10912632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10912634	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs10912635	0.91[AMR][1000 genomes]
rs10912636	0.91[AMR][1000 genomes]
rs10912641	0.81[CEU][hapmap]
rs10912642	0.89[AMR][1000 genomes]
rs10912643	0.81[CEU][hapmap]
rs10912656	0.91[CHB][hapmap];0.86[GIH][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.87[AMR][1000 genomes]
rs12026427	0.81[CEU][hapmap];0.92[AMR][1000 genomes]
rs12026637	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12026677	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12026993	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12027451	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12027495	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12033623	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs12034341	0.92[AMR][1000 genomes]
rs12034533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12035105	0.92[AMR][1000 genomes]
rs12037210	1.00[ASW][hapmap];0.90[MEX][hapmap];0.93[MKK][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12041114	0.91[AMR][1000 genomes]
rs12092383	0.90[CHB][hapmap];0.80[CHD][hapmap]
rs12140760	0.91[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap]
rs12406352	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs12406500	0.92[AMR][1000 genomes]
rs1461014	0.81[CEU][hapmap]
rs1461023	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs1547156	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs16846113	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs16846206	0.90[AMR][1000 genomes]
rs1886639	0.81[CEU][hapmap]
rs2017323	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2422433	0.89[AMR][1000 genomes]
rs4276950	0.91[CHB][hapmap]
rs4336887	0.94[AMR][1000 genomes]
rs4382766	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs4916358	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs4916362	0.91[CHB][hapmap];0.85[JPT][hapmap]
rs4916365	0.90[AMR][1000 genomes]
rs4916368	0.92[AMR][1000 genomes]
rs60043192	0.90[AMR][1000 genomes]
rs6425233	0.91[CHB][hapmap]
rs6675929	0.92[AMR][1000 genomes]
rs6687872	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6702320	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6702835	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs72709325	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs728908	0.92[AMR][1000 genomes]
rs7314	0.95[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap]
rs745573	0.92[AMR][1000 genomes]
rs745574	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7537938	0.91[CHB][hapmap]
rs7540065	0.95[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap]
rs9425718	0.90[CHB][hapmap];0.85[JPT][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1925340	SLC9A11	cis	parietal	SCAN
rs1925340	PRDX6	cis	cerebellum	SCAN
rs1925340	XCL2	cis	parietal	SCAN
rs1925340	SLC9A11	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173508200-173509400	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr1:173508600-173509800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr1:173508600-173509800	Enhancers	Adipose Nuclei	Adipose

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