Variant report

Variant	rs57960033
Chromosome Location	chr5:108456794-108456795
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10037370	0.83[ASN][1000 genomes]
rs10070411	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10073414	0.81[ASN][1000 genomes]
rs10085093	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10477944	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10477945	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs10477946	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10477947	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10477948	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10477949	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10477952	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11746665	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17450455	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17473391	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17534626	0.81[EUR][1000 genomes]
rs2195944	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2217649	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2416198	0.87[EUR][1000 genomes]
rs2416200	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28699553	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3816024	0.83[AFR][1000 genomes]
rs4957567	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4957799	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55930293	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55953478	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56227556	0.81[EUR][1000 genomes]
rs57196331	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59337218	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6872780	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73779027	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73779040	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs73779053	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73779124	0.83[AFR][1000 genomes]
rs73779132	0.89[AFR][1000 genomes]
rs73779135	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9326759	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9326760	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9326762	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][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	nsv830443	chr5:108326491-108496723	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv882692	chr5:108391660-108474166	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv882693	chr5:108391660-108502493	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv882694	chr5:108391660-108524416	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv4953	chr5:108443905-108488747	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1027163	chr5:108445447-108839913	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	esv2756048	chr5:108448101-108542101	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr5:108442000-108497400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr5:108455800-108456800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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