Variant report

Variant	rs2620961
Chromosome Location	chr10:117687320-117687321
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1034938	1.00[CHB][hapmap]
rs10490986	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10490987	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs10490988	0.94[CEU][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap];0.90[EUR][1000 genomes]
rs10787611	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[EUR][1000 genomes]
rs10787612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes]
rs17093786	0.94[CEU][hapmap];0.89[EUR][1000 genomes]
rs17269525	0.94[CEU][hapmap]
rs17269882	0.94[CEU][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.85[TSI][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17269917	0.94[CEU][hapmap];0.82[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17270580	0.94[CEU][hapmap];0.82[JPT][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17270699	0.89[CEU][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap];0.88[EUR][1000 genomes]
rs17354680	0.89[CEU][hapmap]
rs17354968	0.84[GIH][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs2054533	0.94[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.96[EUR][1000 genomes]
rs2249295	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.94[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2263622	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2615870	1.00[CHB][hapmap]
rs2615874	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap]
rs2615880	0.98[EUR][1000 genomes]
rs2615882	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2615884	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2615889	0.88[CEU][hapmap];0.84[CHB][hapmap]
rs2620959	1.00[CEU][hapmap];0.82[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2620960	0.94[CEU][hapmap];0.86[CHB][hapmap];0.97[EUR][1000 genomes]
rs2804164	0.85[CHB][hapmap];1.00[CHD][hapmap]
rs2804165	0.84[CHB][hapmap];0.89[CHD][hapmap]
rs2901094	0.89[CEU][hapmap]
rs2907560	0.85[CHB][hapmap]
rs41284364	0.83[EUR][1000 genomes]
rs55782493	0.91[EUR][1000 genomes]
rs55917752	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56045626	0.88[EUR][1000 genomes]
rs57211763	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58744761	0.91[EUR][1000 genomes]
rs61319078	0.89[EUR][1000 genomes]
rs67778998	0.95[EUR][1000 genomes]
rs67945700	0.94[EUR][1000 genomes]
rs7100412	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs72832833	0.92[EUR][1000 genomes]
rs72832834	0.88[EUR][1000 genomes]
rs72832836	0.90[EUR][1000 genomes]
rs73365760	0.91[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2620961	PDZD8	cis	cerebellum	SCAN
rs2620961	NANOS1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:117658200-117695400	Weak transcription	Aorta	Aorta
2	chr10:117679000-117692800	Weak transcription	HSMM	muscle
3	chr10:117687200-117688600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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