Variant report

Variant	rs1563921
Chromosome Location	chr8:20996082-20996083
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10111769	0.81[ASN][1000 genomes]
rs10112502	0.88[ASN][1000 genomes]
rs10503698	0.86[ASN][1000 genomes]
rs11990863	0.94[ASN][1000 genomes]
rs11996651	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12674821	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12675109	0.98[ASN][1000 genomes]
rs12676979	0.94[ASN][1000 genomes]
rs12677314	0.92[ASN][1000 genomes]
rs12678981	0.97[ASN][1000 genomes]
rs12679819	0.89[ASN][1000 genomes]
rs12679855	0.87[ASN][1000 genomes]
rs12680270	0.99[ASN][1000 genomes]
rs12680287	0.98[ASN][1000 genomes]
rs12681224	0.95[ASN][1000 genomes]
rs13267839	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1563919	0.99[ASN][1000 genomes]
rs1563920	1.00[ASN][1000 genomes]
rs17605964	0.94[ASN][1000 genomes]
rs1841510	0.86[ASN][1000 genomes]
rs2631894	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34133224	0.87[ASN][1000 genomes]
rs34326138	0.89[ASN][1000 genomes]
rs34402513	0.98[ASN][1000 genomes]
rs35063554	0.80[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs35089394	0.98[ASN][1000 genomes]
rs35393501	0.81[ASN][1000 genomes]
rs35508548	0.87[ASN][1000 genomes]
rs35923081	0.82[ASN][1000 genomes]
rs3903353	0.88[ASN][1000 genomes]
rs4739209	0.99[ASN][1000 genomes]
rs4739279	0.88[EUR][1000 genomes]
rs4739280	0.93[ASN][1000 genomes]
rs60715093	0.82[ASN][1000 genomes]
rs7015657	0.87[ASN][1000 genomes]
rs7341617	0.85[CEU][hapmap]
rs898648	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032450	chr8:20514995-21033577	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv539524	chr8:20514995-21033577	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1034265	chr8:20742935-21152545	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv539528	chr8:20742935-21152545	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv831260	chr8:20907266-21097125	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv469878	chr8:20955260-21128307	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv482339	chr8:20955260-21128307	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1563921	LGI3	cis	parietal	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:20988200-20996800	Weak transcription	Right Atrium	heart
2	chr8:20989000-20996600	Weak transcription	Placenta	Placenta
3	chr8:20995200-20996400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr8:20995400-20996600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr8:20995800-20996200	Enhancers	Primary hematopoietic stem cells	blood
6	chr8:20995800-20996400	Enhancers	Fetal Brain Male	brain
7	chr8:20996000-20996200	Enhancers	Gastric	stomach

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