Variant report

Variant	rs58892201
Chromosome Location	chr9:15584649-15584650
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr9:15584372-15584705	H1-hESC	embryonic stem cell:	n/a	n/a
2	USF1	chr9:15584403-15584668	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
HMGN2P16	TF binding region

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11998843	1.00[AMR][1000 genomes]
rs11999047	0.88[AFR][1000 genomes]
rs11999354	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11999403	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12002030	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12002408	0.81[AFR][1000 genomes]
rs12002928	0.81[AFR][1000 genomes]
rs12003098	1.00[AMR][1000 genomes]
rs12003371	1.00[AMR][1000 genomes]
rs16933373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16933376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3082784	0.83[AFR][1000 genomes]
rs35546678	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55678381	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56304941	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56323052	0.83[AFR][1000 genomes]
rs56333848	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56754898	1.00[AMR][1000 genomes]
rs56974853	1.00[AMR][1000 genomes]
rs57098037	1.00[AMR][1000 genomes]
rs57108331	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57201285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57471536	0.89[AFR][1000 genomes]
rs57688272	1.00[AMR][1000 genomes]
rs58027597	0.89[AFR][1000 genomes]
rs58596549	1.00[AMR][1000 genomes]
rs59228819	1.00[AMR][1000 genomes]
rs59254174	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59736306	1.00[AMR][1000 genomes]
rs60294159	1.00[AMR][1000 genomes]
rs60651191	0.83[AFR][1000 genomes]
rs60918672	1.00[AMR][1000 genomes]
rs60940884	0.83[AFR][1000 genomes]
rs61608504	1.00[AMR][1000 genomes]
rs7033545	0.90[AFR][1000 genomes]
rs73644661	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644681	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644683	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644686	1.00[AMR][1000 genomes]
rs73644689	1.00[AMR][1000 genomes]
rs73644690	1.00[AMR][1000 genomes]
rs73644691	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644692	1.00[AMR][1000 genomes]
rs73644693	1.00[AMR][1000 genomes]
rs73644695	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644696	0.83[AFR][1000 genomes]
rs73644697	0.83[AFR][1000 genomes]
rs73644942	1.00[AMR][1000 genomes]
rs73644943	1.00[AMR][1000 genomes]
rs7468160	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv892629	chr9:15516375-15634326	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv3407839	chr9:15530438-15665653	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv892630	chr9:15554960-15694690	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1034795	chr9:15565670-15595591	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1028357	chr9:15565670-15622556	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	esv2752286	chr9:15578017-15794897	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv982197	chr9:15579327-15590303	Weak transcription ZNF genes & repeats Enhancers Strong transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv613652	chr9:15579744-15661859	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15553800-15592600	Weak transcription	Left Ventricle	heart
2	chr9:15554000-15590200	Weak transcription	Fetal Stomach	stomach
3	chr9:15562200-15588200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr9:15579400-15590200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:15580000-15587000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr9:15580000-15587600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr9:15583400-15584800	Enhancers	Fetal Thymus	thymus
8	chr9:15583600-15584800	Enhancers	Placenta	Placenta
9	chr9:15583800-15586000	Enhancers	Thymus	Thymus
10	chr9:15584000-15585000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr9:15584400-15584800	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr9:15584400-15585000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr9:15584400-15585800	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr9:15584400-15588600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr9:15584600-15584800	Enhancers	H1 Cell Line	embryonic stem cell
16	chr9:15584600-15585400	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr9:15584600-15585400	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr9:15584600-15585600	Enhancers	H9 Cell Line	embryonic stem cell
19	chr9:15584600-15585800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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