Variant report

Variant	rs4974179
Chromosome Location	chr3:56230867-56230868
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10433621	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1078309	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1078310	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11926826	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12485705	0.87[EUR][1000 genomes]
rs12486948	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12487839	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12490280	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12491217	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12492055	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12492253	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12494857	0.80[EUR][1000 genomes]
rs12496048	0.83[EUR][1000 genomes]
rs1352008	0.86[EUR][1000 genomes]
rs1352012	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1452218	0.91[ASN][1000 genomes]
rs17056646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17288728	0.88[EUR][1000 genomes]
rs17732598	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1901554	0.91[ASN][1000 genomes]
rs2167617	0.91[EUR][1000 genomes]
rs2316481	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2316482	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35431468	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35995295	0.85[EUR][1000 genomes]
rs4425224	0.89[ASN][1000 genomes]
rs4974120	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4974121	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4974123	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4974130	0.91[EUR][1000 genomes]
rs4974170	0.85[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs4974171	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4974173	0.88[CEU][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4974176	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4974180	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4974196	0.85[EUR][1000 genomes]
rs55849756	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56004380	0.91[EUR][1000 genomes]
rs58413645	0.91[EUR][1000 genomes]
rs59079055	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60383545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60384923	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61689518	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6763791	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6764295	0.86[CEU][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6780051	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6782034	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6783356	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786058	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6788949	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6789409	0.91[EUR][1000 genomes]
rs6801342	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6803165	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6804221	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6810099	0.87[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs71309946	0.88[EUR][1000 genomes]
rs724929	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs72870171	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72870196	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73834604	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs755321	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7613726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7650293	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs977313	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[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	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56229600-56231000	Enhancers	H1 Cell Line	embryonic stem cell
2	chr3:56229800-56231000	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr3:56229800-56231000	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr3:56229800-56231200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr3:56230000-56231400	Enhancers	Fetal Stomach	stomach
6	chr3:56230200-56232200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:56230200-56232400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr3:56230400-56232200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:56230400-56239400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr3:56230600-56232400	Enhancers	Adipose Nuclei	Adipose
11	chr3:56230800-56231200	Enhancers	Fetal Muscle Leg	muscle
12	chr3:56230800-56235000	Weak transcription	HUES6 Cell Line	embryonic stem cell

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