Variant report

Variant	rs12629439
Chromosome Location	chr3:138876456-138876457
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10935312	1.00[ASN][1000 genomes]
rs11706018	0.83[ASN][1000 genomes]
rs11707723	1.00[ASN][1000 genomes]
rs11719269	1.00[ASN][1000 genomes]
rs11927735	1.00[ASN][1000 genomes]
rs12629175	0.83[ASN][1000 genomes]
rs12629248	0.83[ASN][1000 genomes]
rs12630223	0.82[ASN][1000 genomes]
rs12630262	0.83[ASN][1000 genomes]
rs12630333	0.83[ASN][1000 genomes]
rs12631401	0.92[ASN][1000 genomes]
rs12632107	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs12632125	0.95[ASN][1000 genomes]
rs12633735	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12635620	0.83[ASN][1000 genomes]
rs12636332	0.83[ASN][1000 genomes]
rs12636430	0.83[ASN][1000 genomes]
rs12639194	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13067012	0.95[ASN][1000 genomes]
rs13069778	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13075082	1.00[ASN][1000 genomes]
rs13079289	1.00[ASN][1000 genomes]
rs13079437	1.00[ASN][1000 genomes]
rs13089589	0.97[ASN][1000 genomes]
rs13097708	1.00[ASN][1000 genomes]
rs1554563	0.99[ASN][1000 genomes]
rs1554564	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1554565	1.00[ASN][1000 genomes]
rs2737737	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35781224	1.00[ASN][1000 genomes]
rs4365652	0.97[ASN][1000 genomes]
rs4429660	1.00[ASN][1000 genomes]
rs4894383	0.96[ASN][1000 genomes]
rs4894384	0.98[ASN][1000 genomes]
rs56729627	1.00[ASN][1000 genomes]
rs57272617	0.80[ASN][1000 genomes]
rs57678437	0.83[ASN][1000 genomes]
rs6775443	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6778179	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778394	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73865838	0.83[ASN][1000 genomes]
rs73865842	0.83[ASN][1000 genomes]
rs73868514	0.83[ASN][1000 genomes]
rs73868515	0.83[ASN][1000 genomes]
rs7426421	0.99[ASN][1000 genomes]
rs7614968	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7615670	1.00[ASN][1000 genomes]
rs7623750	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs7626912	0.97[ASN][1000 genomes]
rs7627087	0.97[ASN][1000 genomes]
rs7637464	1.00[ASN][1000 genomes]
rs7639780	1.00[ASN][1000 genomes]

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	nsv829736	chr3:138737352-138934758	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1005167	chr3:138854490-138988546	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536728	chr3:138854490-138988546	Enhancers Bivalent Enhancer Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:138875600-138876600	Enhancers	H1 Cell Line	embryonic stem cell
2	chr3:138875800-138876800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:138876000-138876600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:138876000-138876600	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr3:138876200-138876600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr3:138876200-138876600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr3:138876400-138876600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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