Variant report

Variant	rs7539656
Chromosome Location	chr1:197667937-197667938
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10082059	1.00[AMR][1000 genomes]
rs13374542	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28485341	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57589685	1.00[AMR][1000 genomes]
rs57594005	1.00[AMR][1000 genomes]
rs59416760	1.00[AMR][1000 genomes]
rs6428420	1.00[AMR][1000 genomes]
rs6686513	1.00[AMR][1000 genomes]
rs6686735	1.00[AMR][1000 genomes]
rs6688961	1.00[AMR][1000 genomes]
rs6694441	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73075682	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73075690	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73075699	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73077604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73077619	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73077640	0.90[AFR][1000 genomes]
rs73079634	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73079655	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73081752	1.00[AMR][1000 genomes]
rs73081769	1.00[AMR][1000 genomes]
rs73081781	1.00[AMR][1000 genomes]
rs73081791	1.00[AMR][1000 genomes]
rs73081794	1.00[AMR][1000 genomes]
rs73083805	1.00[AMR][1000 genomes]
rs7516293	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7519957	1.00[AMR][1000 genomes]
rs7526273	1.00[AMR][1000 genomes]
rs7528697	1.00[AMR][1000 genomes]
rs7539224	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7550287	1.00[AMR][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	nsv873074	chr1:197464448-197698103	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv873075	chr1:197464448-197714851	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv873076	chr1:197529218-197689967	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
4	nsv437263	chr1:197599030-197722240	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv427908	chr1:197611569-197767362	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv873077	chr1:197615391-197698103	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
7	nsv548873	chr1:197664905-197694037	Enhancers ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:197657000-197677000	Weak transcription	Ovary	ovary
2	chr1:197658200-197668200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr1:197659400-197674800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr1:197659800-197674400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr1:197665800-197675400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr1:197665800-197693600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr1:197666200-197671400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:197666800-197675800	Weak transcription	Primary T helper cells fromperipheralblood	blood

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