Variant report

Variant	rs12002030
Chromosome Location	chr9:15659604-15659605
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs11998843	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11999047	0.81[AFR][1000 genomes]
rs11999354	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11999403	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12001109	1.00[AMR][1000 genomes]
rs12002511	1.00[AMR][1000 genomes]
rs12003098	1.00[AMR][1000 genomes]
rs12003371	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16933373	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16933376	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16933587	1.00[AMR][1000 genomes]
rs35546678	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55678381	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56304941	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56323052	0.93[AFR][1000 genomes]
rs56333848	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56754898	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56818091	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56974853	1.00[AMR][1000 genomes]
rs57098037	1.00[AMR][1000 genomes]
rs57108331	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57201285	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57688272	1.00[AMR][1000 genomes]
rs57779097	1.00[AMR][1000 genomes]
rs58010776	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58596549	1.00[AMR][1000 genomes]
rs58603418	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58892201	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59106947	1.00[AMR][1000 genomes]
rs59228819	1.00[AMR][1000 genomes]
rs59254174	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59703985	1.00[AMR][1000 genomes]
rs59736306	1.00[AMR][1000 genomes]
rs60294159	1.00[AMR][1000 genomes]
rs60322090	1.00[AMR][1000 genomes]
rs60581753	1.00[AMR][1000 genomes]
rs60651191	0.93[AFR][1000 genomes]
rs60655538	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60911267	1.00[AMR][1000 genomes]
rs60918672	1.00[AMR][1000 genomes]
rs60940884	0.93[AFR][1000 genomes]
rs60997329	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61608504	1.00[AMR][1000 genomes]
rs7033545	0.93[AFR][1000 genomes]
rs73418180	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73420322	1.00[AMR][1000 genomes]
rs73644661	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644680	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644681	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644683	0.90[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	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644692	1.00[AMR][1000 genomes]
rs73644693	1.00[AMR][1000 genomes]
rs73644694	0.87[AFR][1000 genomes]
rs73644695	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644696	0.93[AFR][1000 genomes]
rs73644697	0.93[AFR][1000 genomes]
rs73644942	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644943	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644945	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73644946	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7468160	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 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	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
5	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
6	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
7	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
8	nsv613653	chr9:15590116-15668606	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv892631	chr9:15590116-15694690	Weak transcription ZNF genes & repeats Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv892632	chr9:15590116-15869845	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv613655	chr9:15602101-15670445	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv892633	chr9:15604746-15889411	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv613656	chr9:15615321-15696501	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv466262	chr9:15615321-15727518	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv613657	chr9:15615321-15727518	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv613658	chr9:15636260-15727518	Strong transcription Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv466263	chr9:15641279-15726057	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	nsv613659	chr9:15641279-15726057	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15645600-15689200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:15651400-15660400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr9:15652200-15666200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:15655200-15691600	Weak transcription	Thymus	Thymus
5	chr9:15658200-15660800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:15659200-15660800	Weak transcription	Brain Anterior Caudate	brain

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