Variant report

Variant	rs3909542
Chromosome Location	chr16:72183505-72183506
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10400963	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10852511	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11075924	0.86[ASN][1000 genomes]
rs12162087	0.85[EUR][1000 genomes]
rs12448315	0.81[AFR][1000 genomes]
rs12917999	0.88[EUR][1000 genomes]
rs12918956	0.84[ASN][1000 genomes]
rs12928365	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12930285	0.81[ASN][1000 genomes]
rs12930702	0.82[EUR][1000 genomes]
rs12932845	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12935266	0.88[EUR][1000 genomes]
rs2070937	0.88[EUR][1000 genomes]
rs2236765	0.81[EUR][1000 genomes]
rs2241411	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3812984	0.85[ASN][1000 genomes]
rs3812986	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3844425	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs3852782	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3852784	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3852786	0.84[ASN][1000 genomes]
rs3852787	0.82[ASN][1000 genomes]
rs3890860	0.82[EUR][1000 genomes]
rs3909541	0.88[ASN][1000 genomes]
rs3909543	0.81[ASN][1000 genomes]
rs4238964	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs4788458	0.88[EUR][1000 genomes]
rs4788461	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4788464	0.83[ASN][1000 genomes]
rs4788609	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4788610	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6499557	0.87[EUR][1000 genomes]
rs6499560	0.81[AFR][1000 genomes]
rs6499563	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6499564	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7186155	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7188962	0.85[EUR][1000 genomes]
rs7189591	0.85[EUR][1000 genomes]
rs7190994	0.85[EUR][1000 genomes]
rs7193559	0.81[ASN][1000 genomes]
rs7197020	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7199261	0.86[EUR][1000 genomes]
rs7200003	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7200854	0.87[EUR][1000 genomes]
rs7201643	0.85[EUR][1000 genomes]
rs7201866	0.82[EUR][1000 genomes]
rs7202268	0.88[EUR][1000 genomes]
rs7203426	0.88[EUR][1000 genomes]
rs7203821	0.85[EUR][1000 genomes]
rs7940	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8044868	0.90[AFR][1000 genomes]
rs8052338	0.81[ASN][1000 genomes]
rs8059437	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8060770	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8182213	0.87[EUR][1000 genomes]
rs9924964	0.81[EUR][1000 genomes]
rs9927526	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9928157	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9932951	0.82[EUR][1000 genomes]
rs9938382	0.85[EUR][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	nsv948468	chr16:71727571-72651914	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
2	esv2758430	chr16:71976344-72274347	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
3	esv2758654	chr16:71976344-72274347	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv428329	chr16:71976344-72274347	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv1060983	chr16:72074832-72791629	Genic enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
6	nsv534588	chr16:72078262-72287230	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv1060804	chr16:72078486-72791629	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72172400-72193000	Weak transcription	HepG2	liver
2	chr16:72183400-72184600	Enhancers	GM12878-XiMat	blood

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