Variant report

Variant	rs7349558
Chromosome Location	chr3:133396131-133396132
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10512903	0.85[EUR][1000 genomes]
rs10512904	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs10512907	0.89[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs10512908	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs10512909	0.84[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs11706413	0.89[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.84[EUR][1000 genomes]
rs11706586	0.89[CEU][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11706809	0.84[EUR][1000 genomes]
rs11707750	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs11708197	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs11708532	0.89[EUR][1000 genomes]
rs11708565	0.89[EUR][1000 genomes]
rs11709132	0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11709349	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs11709404	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs11709461	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11709940	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs11710111	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs11711706	0.88[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.82[EUR][1000 genomes]
rs11712186	0.83[EUR][1000 genomes]
rs11712672	0.89[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs11713205	0.85[EUR][1000 genomes]
rs11713248	0.89[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11714392	0.89[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11714422	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs11715407	0.87[EUR][1000 genomes]
rs11715435	0.85[EUR][1000 genomes]
rs11715615	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs11716197	0.87[EUR][1000 genomes]
rs11716388	0.89[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs11716415	0.87[EUR][1000 genomes]
rs11717424	0.87[EUR][1000 genomes]
rs11717902	0.89[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11718050	0.89[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11718234	0.84[EUR][1000 genomes]
rs11718255	0.85[EUR][1000 genomes]
rs11719366	0.87[EUR][1000 genomes]
rs11719585	0.87[EUR][1000 genomes]
rs11719687	0.89[EUR][1000 genomes]
rs11720825	0.82[EUR][1000 genomes]
rs16840594	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16840595	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17301253	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs17301521	0.87[EUR][1000 genomes]
rs17301766	0.84[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs17301889	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs17373504	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs17373726	0.87[EUR][1000 genomes]
rs2718801	0.82[CEU][hapmap];1.00[GIH][hapmap];0.89[TSI][hapmap]
rs28846461	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55729127	0.84[EUR][1000 genomes]
rs55741097	0.84[EUR][1000 genomes]
rs56040719	0.82[EUR][1000 genomes]
rs56292037	0.84[EUR][1000 genomes]
rs56323915	0.89[EUR][1000 genomes]
rs62282388	0.82[EUR][1000 genomes]
rs62282389	0.82[EUR][1000 genomes]
rs62282390	0.82[EUR][1000 genomes]
rs62282392	0.84[EUR][1000 genomes]
rs62282415	0.85[EUR][1000 genomes]
rs62282417	0.86[EUR][1000 genomes]
rs62282418	0.87[EUR][1000 genomes]
rs62282419	0.87[EUR][1000 genomes]
rs62282420	0.87[EUR][1000 genomes]
rs62282421	0.87[EUR][1000 genomes]
rs62282424	0.87[EUR][1000 genomes]
rs62282425	0.87[EUR][1000 genomes]
rs62282427	0.89[EUR][1000 genomes]
rs62282428	0.88[EUR][1000 genomes]
rs62282429	0.89[EUR][1000 genomes]
rs62282431	0.89[EUR][1000 genomes]
rs62282451	0.89[EUR][1000 genomes]
rs62282452	0.89[EUR][1000 genomes]
rs62282453	0.90[EUR][1000 genomes]
rs62282454	0.90[EUR][1000 genomes]
rs62282456	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6765265	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7630957	1.00[CEU][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7650725	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7653808	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7349558	TOPBP1	cis	parietal	SCAN
rs7349558	ACPP	cis	parietal	SCAN
rs7349558	TOPBP1	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133393800-133396200	Weak transcription	Right Atrium	heart
2	chr3:133393800-133406800	Weak transcription	Brain Substantia Nigra	brain
3	chr3:133394000-133399600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:133395400-133396400	Enhancers	Liver	Liver
5	chr3:133395800-133396200	Enhancers	HepG2	liver

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