Variant report

Variant	rs2553469
Chromosome Location	chr4:106720658-106720659
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10516524	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11097896	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294668	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294671	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294672	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17261786	0.83[ASN][1000 genomes]
rs17262443	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17262457	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17263714	0.94[ASN][1000 genomes]
rs17264527	0.94[ASN][1000 genomes]
rs1862081	1.00[ASN][1000 genomes]
rs1982346	0.83[ASN][1000 genomes]
rs2098571	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2112047	1.00[ASN][1000 genomes]
rs2112049	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2161046	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2193855	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2193856	1.00[ASN][1000 genomes]
rs2193857	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2216515	1.00[ASN][1000 genomes]
rs2216516	1.00[ASN][1000 genomes]
rs2256746	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544399	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544401	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2544402	1.00[ASN][1000 genomes]
rs2544403	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544414	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2544417	1.00[ASN][1000 genomes]
rs2544418	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544424	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544426	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544429	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544430	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553446	1.00[ASN][1000 genomes]
rs2553448	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2553451	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2553452	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2553456	1.00[ASN][1000 genomes]
rs2553457	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553460	1.00[ASN][1000 genomes]
rs2553461	1.00[ASN][1000 genomes]
rs2553463	1.00[ASN][1000 genomes]
rs2553464	0.90[AFR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553466	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2553467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553470	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553471	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2866781	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3943980	1.00[ASN][1000 genomes]
rs4317208	0.87[AMR][1000 genomes]
rs56843185	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73837092	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73837096	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73839004	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73839006	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73839007	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73839008	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73839010	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7676226	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]

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	nsv879700	chr4:106643445-106745057	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106692400-106729400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:106695200-106757000	Weak transcription	Primary B cells from cord blood	blood
3	chr4:106697200-106725800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr4:106697800-106723200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:106698000-106725200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:106703200-106755600	Weak transcription	Primary hematopoietic stem cells	blood
7	chr4:106714200-106725800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr4:106717800-106729000	Weak transcription	Dnd41	blood
9	chr4:106719200-106723400	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr4:106719600-106728800	Weak transcription	Small Intestine	intestine
11	chr4:106720000-106723200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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