Variant report

Variant	rs9955239
Chromosome Location	chr18:28868514-28868515
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1154850	0.81[AMR][1000 genomes]
rs1154851	0.81[AMR][1000 genomes]
rs11661048	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11661104	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11663924	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11873223	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11873281	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11875510	0.81[AMR][1000 genomes]
rs11875560	0.81[AMR][1000 genomes]
rs11876962	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12963302	0.81[AMR][1000 genomes]
rs1426310	0.86[AMR][1000 genomes]
rs1426311	0.81[AMR][1000 genomes]
rs1834582	0.86[AMR][1000 genomes]
rs1895902	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2114269	0.81[AMR][1000 genomes]
rs2901124	0.81[AMR][1000 genomes]
rs34248946	0.81[AMR][1000 genomes]
rs35223713	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35287825	0.81[EUR][1000 genomes]
rs35382145	0.81[AMR][1000 genomes]
rs4598984	0.82[AMR][1000 genomes]
rs55778425	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55965644	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56088904	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62088665	0.81[EUR][1000 genomes]
rs62088675	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6506910	0.84[EUR][1000 genomes]
rs6506912	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67550130	0.81[EUR][1000 genomes]
rs7227412	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7229763	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7229799	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7230092	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7231346	0.81[AMR][1000 genomes]
rs7231775	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7237383	0.81[AMR][1000 genomes]
rs7237419	0.81[AMR][1000 genomes]
rs7241874	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7244719	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7245063	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8087410	0.81[AMR][1000 genomes]
rs8087621	0.85[AMR][1000 genomes]
rs8088418	0.81[AMR][1000 genomes]
rs8091579	0.81[AMR][1000 genomes]
rs8091847	0.81[AMR][1000 genomes]
rs8091934	0.81[AMR][1000 genomes]
rs8092044	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs966376	0.89[ASN][1000 genomes]
rs9944661	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9947296	0.81[AMR][1000 genomes]
rs9947444	0.81[AMR][1000 genomes]
rs9953981	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9954315	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9955289	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9966267	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9967293	0.91[AMR][1000 genomes];0.96[EUR][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	esv3360998	chr18:28693111-28881812	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1066692	chr18:28856066-29190505	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv543674	chr18:28856066-29190505	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	esv3422577	chr18:28862003-28881811	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28861200-28869400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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