Variant report

Variant	rs11572126
Chromosome Location	chr10:96814915-96814916
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10509679	0.83[MKK][hapmap]
rs1058932	0.87[GIH][hapmap];0.85[JPT][hapmap]
rs10882520	0.86[JPT][hapmap]
rs10882521	0.86[JPT][hapmap]
rs10882525	0.86[JPT][hapmap]
rs1113129	0.86[JPT][hapmap]
rs11188149	0.86[JPT][hapmap]
rs11188156	0.86[JPT][hapmap]
rs11572101	0.89[GIH][hapmap];0.85[JPT][hapmap]
rs11572133	0.86[JPT][hapmap]
rs12572351	0.83[MKK][hapmap]
rs1341159	0.84[JPT][hapmap]
rs1341160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341162	0.84[GIH][hapmap];0.86[JPT][hapmap]
rs17110453	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1934951	0.87[GIH][hapmap];0.86[JPT][hapmap]
rs1934980	0.89[GIH][hapmap];0.86[JPT][hapmap]
rs2298037	0.83[MKK][hapmap]
rs3752988	0.86[JPT][hapmap]
rs56032439	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs71482333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9332105	0.83[MKK][hapmap]
rs9332113	0.91[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1035409	chr10:96495177-96832057	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv467436	chr10:96805371-96862286	Genic enhancers Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
5	nsv551964	chr10:96805371-96862286	ZNF genes & repeats Strong transcription Genic enhancers Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11572126	SLC47A1	trans	lymphoblastoid	seeQTL
rs11572126	HELLS	cis	cerebellum	SCAN
rs11572126	TMEM163	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96805400-96823600	Weak transcription	Pancreas	Pancrea
2	chr10:96814600-96816200	Strong transcription	Liver	Liver

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