Variant report

Variant	rs56858752
Chromosome Location	chr13:87852130-87852131
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs3963903	0.85[AMR][1000 genomes]
rs4511400	0.85[AMR][1000 genomes]
rs4553471	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs4575405	0.85[AMR][1000 genomes]
rs55758789	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55811630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56036938	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56702454	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56708308	0.83[AMR][1000 genomes]
rs56814755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56970807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57019306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57289088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57704092	0.85[AMR][1000 genomes]
rs57871348	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58107726	0.83[AMR][1000 genomes]
rs58436419	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58514415	1.00[AMR][1000 genomes]
rs58701611	1.00[AFR][1000 genomes]
rs58833676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59046442	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs59092487	0.85[AMR][1000 genomes]
rs59102208	1.00[AMR][1000 genomes]
rs59699555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59925877	0.85[AMR][1000 genomes]
rs60065293	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60314271	0.85[AMR][1000 genomes]
rs60475582	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60632788	1.00[AMR][1000 genomes]
rs60792874	0.97[AFR][1000 genomes]
rs60967936	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61001114	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61607055	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61613775	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61711434	1.00[AMR][1000 genomes]
rs73558873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558881	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558888	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558894	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73558897	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560614	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560690	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560692	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560695	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73560696	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73560700	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73561058	1.00[AMR][1000 genomes]
rs73561060	0.83[AMR][1000 genomes]
rs73561062	1.00[AMR][1000 genomes]
rs73561063	1.00[AMR][1000 genomes]
rs73561064	1.00[AMR][1000 genomes]
rs73561067	1.00[AMR][1000 genomes]
rs73561074	1.00[AMR][1000 genomes]
rs73561076	1.00[AMR][1000 genomes]
rs73561079	1.00[AMR][1000 genomes]
rs73561089	1.00[AMR][1000 genomes]
rs73561097	1.00[AMR][1000 genomes]
rs73562405	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73562409	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73562411	0.85[AMR][1000 genomes]
rs73562418	0.85[AMR][1000 genomes]
rs73562421	0.85[AMR][1000 genomes]
rs73562428	0.85[AMR][1000 genomes]
rs73563113	1.00[AMR][1000 genomes]
rs73565477	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73565483	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73565494	0.85[AMR][1000 genomes]
rs73565498	0.85[AMR][1000 genomes]
rs73566070	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566071	0.85[AMR][1000 genomes]
rs73566074	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566089	0.85[AMR][1000 genomes]
rs73566091	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566093	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73566098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73566100	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73567606	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103265	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103273	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103287	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103289	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74103350	0.85[AMR][1000 genomes]
rs74103357	1.00[AMR][1000 genomes]
rs74103367	1.00[AMR][1000 genomes]
rs74103376	1.00[AMR][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	nsv562621	chr13:87192747-87927450	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1045687	chr13:87822969-88114685	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv541860	chr13:87822969-88114685	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv930999	chr13:87831662-88143592	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1047914	chr13:87835419-87909531	Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1043448	chr13:87835419-88140970	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv517795	chr13:87836852-87893390	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	esv3365319	chr13:87851951-87856849	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:87848400-87852200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:87848400-87859400	Weak transcription	HUES6 Cell Line	embryonic stem cell

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