Variant report

Variant	rs12411569
Chromosome Location	chr10:97735093-97735094
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10509686	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10509695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.90[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10509700	1.00[JPT][hapmap]
rs10509701	1.00[JPT][hapmap]
rs10509703	1.00[JPT][hapmap]
rs10786247	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10882671	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10882698	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882718	1.00[JPT][hapmap]
rs10882723	1.00[JPT][hapmap]
rs10882728	1.00[JPT][hapmap]
rs11188484	1.00[JPT][hapmap]
rs11188504	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11188530	0.96[CEU][hapmap];0.85[CHB][hapmap]
rs11188531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap]
rs11188541	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188575	1.00[JPT][hapmap]
rs11188596	1.00[JPT][hapmap]
rs11188604	1.00[JPT][hapmap]
rs11188622	1.00[JPT][hapmap]
rs11188627	1.00[JPT][hapmap]
rs11188631	1.00[JPT][hapmap]
rs11188635	1.00[JPT][hapmap]
rs11595809	1.00[JPT][hapmap]
rs11598475	1.00[JPT][hapmap]
rs11598546	1.00[JPT][hapmap]
rs11598837	1.00[JPT][hapmap]
rs11599170	1.00[JPT][hapmap]
rs12354644	1.00[JPT][hapmap]
rs12354848	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12359343	0.84[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap]
rs12359842	1.00[JPT][hapmap]
rs12761705	1.00[JPT][hapmap]
rs17382898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891536	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs1935815	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2861151	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2861153	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs3181122	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs3961944	1.00[JPT][hapmap]
rs4325250	0.95[CEU][hapmap];0.82[CHB][hapmap]
rs4344425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.90[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4512761	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs56365500	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57294882	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60928707	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61075650	0.85[EUR][1000 genomes]
rs61559520	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61871140	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7089668	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs713070	1.00[JPT][hapmap]
rs7895056	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7896077	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761619	chr10:97719520-97746180	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs12411569	ALDH18A1	cis	cerebellum	SCAN
rs12411569	ENTPD1	cis	lymphoblastoid	seeQTL
rs12411569	FRAT1	cis	parietal	SCAN
rs12411569	ENTPD1	cis	multi-tissue	Pritchard

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97725400-97735800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr10:97725400-97736200	Weak transcription	GM12878-XiMat	blood

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