Variant report

Variant	rs6899577
Chromosome Location	chr6:77960369-77960370
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10455107	1.00[AFR][1000 genomes]
rs10943440	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10943442	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10943444	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10943448	1.00[AFR][1000 genomes]
rs10943450	1.00[AFR][1000 genomes]
rs10943455	1.00[AFR][1000 genomes]
rs11509441	1.00[AFR][1000 genomes]
rs11963068	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11963096	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11964466	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12189579	0.83[AMR][1000 genomes]
rs12191358	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12193279	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12193587	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12194566	1.00[AFR][1000 genomes]
rs12195192	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12196920	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12199380	1.00[AFR][1000 genomes]
rs12201820	0.83[AMR][1000 genomes]
rs12202106	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12205293	1.00[AFR][1000 genomes]
rs12206101	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs12207458	1.00[AFR][1000 genomes]
rs12211642	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12214471	1.00[AFR][1000 genomes]
rs12214530	1.00[AFR][1000 genomes]
rs12214837	1.00[AFR][1000 genomes]
rs12215818	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1342630	1.00[AFR][1000 genomes]
rs16888733	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs36134518	0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4142467	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs57497739	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60223508	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs62416424	1.00[AFR][1000 genomes]
rs72892779	1.00[AFR][1000 genomes]
rs72894639	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72894641	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72894648	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72894650	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72894652	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72894656	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72894666	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72894668	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72894702	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs72896610	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72896611	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72896613	1.00[AFR][1000 genomes]
rs72896615	0.83[AMR][1000 genomes]
rs72896661	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72896663	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72898730	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72898733	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72898736	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72898752	1.00[AFR][1000 genomes]
rs72898768	1.00[AFR][1000 genomes]
rs72898774	1.00[AFR][1000 genomes]
rs72898792	1.00[AFR][1000 genomes]
rs72900711	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017082	chr6:77585310-78258237	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv3417770	chr6:77670473-77963253	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3402238	chr6:77670497-77963278	Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv534282	chr6:77764575-78351994	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1034979	chr6:77781244-78426249	Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv538324	chr6:77781244-78426249	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv2753543	chr6:77791848-78059351	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1015307	chr6:77902559-78352291	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr6:77952800-77961400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:77959000-77961400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:77959800-77974600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:77960200-77961000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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