Variant report

Variant	rs16872543
Chromosome Location	chr5:42404928-42404929
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10064323	0.94[ASN][1000 genomes]
rs10078980	1.00[EUR][1000 genomes]
rs10941576	0.94[ASN][1000 genomes]
rs1117110	0.93[ASN][1000 genomes]
rs11738365	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12513643	0.96[ASN][1000 genomes]
rs12514403	0.82[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12515480	1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12517368	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12517869	1.00[EUR][1000 genomes]
rs12517931	0.96[ASN][1000 genomes]
rs12518010	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12518274	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12520318	0.96[ASN][1000 genomes]
rs12520405	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12522222	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12522421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12523537	0.94[ASN][1000 genomes]
rs12654242	0.91[ASN][1000 genomes]
rs12654986	0.82[AMR][1000 genomes]
rs13185872	0.94[ASN][1000 genomes]
rs1396768	0.93[ASN][1000 genomes]
rs1396775	0.94[ASN][1000 genomes]
rs1472947	0.94[ASN][1000 genomes]
rs1509455	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1509456	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1509460	0.81[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1509462	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1509463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1605851	0.89[ASN][1000 genomes]
rs16872537	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16872564	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1858136	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1858138	0.96[ASN][1000 genomes]
rs1876790	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1960498	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1979994	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2036745	0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2202883	0.93[ASN][1000 genomes]
rs2221712	0.93[ASN][1000 genomes]
rs2395970	0.93[ASN][1000 genomes]
rs28498583	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs28943875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28943877	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28943879	0.82[ASN][1000 genomes]
rs2940912	0.94[ASN][1000 genomes]
rs2940914	0.93[ASN][1000 genomes]
rs2940917	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2940918	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2940919	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2940922	0.91[ASN][1000 genomes]
rs2940923	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2940927	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2940934	0.93[ASN][1000 genomes]
rs2940940	0.96[ASN][1000 genomes]
rs2940945	0.96[ASN][1000 genomes]
rs2972394	0.94[ASN][1000 genomes]
rs2972406	0.93[ASN][1000 genomes]
rs2972407	0.90[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2972408	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2972410	0.91[ASN][1000 genomes]
rs2972411	0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2972412	0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2972413	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs36072701	1.00[EUR][1000 genomes]
rs3764453	0.98[ASN][1000 genomes]
rs4358532	0.89[ASN][1000 genomes]
rs4866781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4866782	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4866788	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4866790	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes]
rs4866795	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4866812	1.00[EUR][1000 genomes]
rs4866896	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4866901	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4866919	0.93[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4866932	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4866933	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4866935	1.00[AMR][1000 genomes]
rs58179197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6882434	1.00[EUR][1000 genomes]
rs6882555	1.00[EUR][1000 genomes]
rs6887373	1.00[EUR][1000 genomes]
rs6887391	1.00[EUR][1000 genomes]
rs6887759	1.00[EUR][1000 genomes]
rs73091966	1.00[EUR][1000 genomes]
rs73091974	1.00[EUR][1000 genomes]
rs7379247	1.00[EUR][1000 genomes]
rs7380353	1.00[EUR][1000 genomes]
rs7380870	1.00[EUR][1000 genomes]
rs906817	0.96[ASN][1000 genomes]
rs949559	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9654394	1.00[EUR][1000 genomes]
rs9686537	0.94[ASN][1000 genomes]
rs9687863	0.91[ASN][1000 genomes]
rs979233	0.94[ASN][1000 genomes]
rs991592	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933208	chr5:41879946-42876624	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	112 gene(s)	inside rSNPs	diseases
2	nsv492147	chr5:41902086-42896162	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	113 gene(s)	inside rSNPs	diseases
3	nsv881375	chr5:42254097-42442715	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv948514	chr5:42270161-42519262	Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:42403200-42405400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr5:42403600-42405200	Enhancers	Adipose Nuclei	Adipose
3	chr5:42403800-42405400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr5:42404800-42405200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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