Variant report

Variant	rs11024330
Chromosome Location	chr11:17610053-17610054
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1003490	0.89[ASW][hapmap];1.00[JPT][hapmap];0.89[MKK][hapmap];1.00[ASN][1000 genomes]
rs10741730	0.89[ASW][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.87[MKK][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10766411	1.00[EUR][1000 genomes]
rs10766412	0.86[EUR][1000 genomes]
rs10832807	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10832808	1.00[EUR][1000 genomes]
rs10832809	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs10832810	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10832811	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs10832812	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10832813	1.00[EUR][1000 genomes]
rs10832814	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10832815	1.00[EUR][1000 genomes]
rs11024327	0.90[ASW][hapmap];0.82[TSI][hapmap]
rs11024329	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11024345	1.00[JPT][hapmap]
rs11024348	0.82[JPT][hapmap]
rs11024349	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11827077	1.00[ASN][1000 genomes]
rs12272104	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12277962	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12361934	1.00[JPT][hapmap]
rs2058003	0.82[JPT][hapmap]
rs4757551	0.87[ASN][1000 genomes]
rs4757552	0.87[ASN][1000 genomes]
rs56136656	1.00[EUR][1000 genomes]
rs60504216	1.00[ASN][1000 genomes]
rs61880560	1.00[ASN][1000 genomes]
rs61880563	0.87[ASN][1000 genomes]
rs7106021	0.83[CEU][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes]
rs7110462	1.00[JPT][hapmap]
rs7112338	1.00[JPT][hapmap]
rs7118838	1.00[JPT][hapmap]
rs7129066	0.88[CEU][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.82[YRI][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72871849	0.87[ASN][1000 genomes]
rs740324	1.00[JPT][hapmap]
rs7924620	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7928233	1.00[ASN][1000 genomes]
rs7940163	0.99[EUR][1000 genomes]
rs7948744	0.82[JPT][hapmap]
rs7949599	1.00[JPT][hapmap]
rs7950303	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040065	chr11:17556031-17753467	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1044126	chr11:17557715-17730646	Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv540953	chr11:17557715-17730646	Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11024330	PXDN	trans	lymphoblastoid	seeQTL
rs11024330	RRAS2	cis	cerebellum	SCAN
rs11024330	SAAL1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17609800-17610600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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