Variant report

Variant	rs11529206
Chromosome Location	chr11:24467581-24467582
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10500977	0.98[ASN][1000 genomes]
rs10767187	0.84[ASN][1000 genomes]
rs10834345	0.98[ASN][1000 genomes]
rs11027913	0.99[ASN][1000 genomes]
rs11027918	0.99[ASN][1000 genomes]
rs11027922	0.98[ASN][1000 genomes]
rs11027923	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11027951	0.90[JPT][hapmap]
rs11529783	0.99[ASN][1000 genomes]
rs12226856	0.98[ASN][1000 genomes]
rs12276835	0.82[EUR][1000 genomes]
rs12805416	0.82[ASN][1000 genomes]
rs1343880	0.97[ASN][1000 genomes]
rs1509616	0.90[JPT][hapmap]
rs16912582	0.99[ASN][1000 genomes]
rs1878442	0.94[ASN][1000 genomes]
rs2403940	0.98[ASN][1000 genomes]
rs2403941	0.98[ASN][1000 genomes]
rs35644420	0.99[ASN][1000 genomes]
rs4344487	0.98[ASN][1000 genomes]
rs6484051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7110772	0.85[ASN][1000 genomes]
rs7113480	0.95[ASN][1000 genomes]
rs7114445	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs7933633	0.83[ASN][1000 genomes]
rs9666038	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055026	chr11:24151133-24737122	Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1037744	chr11:24174588-24737122	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv467755	chr11:24407381-24527958	Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv553791	chr11:24407381-24527958	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv897088	chr11:24419481-24543475	Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv553794	chr11:24435202-24537624	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv1834240	chr11:24443570-24475606	ZNF genes & repeats Enhancers Weak transcription	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
8	esv1837912	chr11:24443570-24475606	Enhancers Weak transcription ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
9	esv1838431	chr11:24443570-24475606	Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
10	esv1841990	chr11:24443570-24475606	Enhancers ZNF genes & repeats Weak transcription	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
11	esv1837793	chr11:24443570-24527958	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11529206	LOC388796	trans	lymphoblastoid	seeQTL
rs11529206	LIN7C	cis	cerebellum	SCAN
rs11529206	SLC6A5	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:24464600-24467600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
2	chr11:24465800-24467800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
3	chr11:24466000-24467600	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
4	chr11:24466400-24467600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
5	chr11:24467200-24469200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr11:24467400-24471200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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