Variant report

Variant	rs12003098
Chromosome Location	chr9:15550179-15550180
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15548082..15550677-chr9:15551279..15553386,2	MCF-7	breast:
2	chr9:15540944..15543831-chr9:15548082..15550784,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164989	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11999354	1.00[AMR][1000 genomes]
rs11999403	1.00[AMR][1000 genomes]
rs12002030	1.00[AMR][1000 genomes]
rs16933373	1.00[AMR][1000 genomes]
rs16933376	1.00[AMR][1000 genomes]
rs35546678	1.00[AMR][1000 genomes]
rs55678381	1.00[AMR][1000 genomes]
rs56304941	1.00[AMR][1000 genomes]
rs56333848	1.00[AMR][1000 genomes]
rs56974853	1.00[AMR][1000 genomes]
rs57098037	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57108331	1.00[AMR][1000 genomes]
rs57201285	1.00[AMR][1000 genomes]
rs57688272	1.00[AMR][1000 genomes]
rs58596549	1.00[AMR][1000 genomes]
rs58892201	1.00[AMR][1000 genomes]
rs59228819	1.00[AMR][1000 genomes]
rs59254174	1.00[AMR][1000 genomes]
rs59736306	1.00[AMR][1000 genomes]
rs60294159	1.00[AMR][1000 genomes]
rs60918672	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61608504	1.00[AMR][1000 genomes]
rs73644661	1.00[AMR][1000 genomes]
rs73644680	1.00[AMR][1000 genomes]
rs73644681	1.00[AMR][1000 genomes]
rs73644683	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[AMR][1000 genomes]
rs73644692	1.00[AMR][1000 genomes]
rs73644693	1.00[AMR][1000 genomes]
rs73644695	1.00[AMR][1000 genomes]
rs7468160	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15544000-15551800	Weak transcription	A549	lung
2	chr9:15549600-15550400	Enhancers	Primary neutrophils fromperipheralblood	blood
3	chr9:15549800-15550200	Enhancers	Rectal Mucosa Donor 29	rectum
4	chr9:15549800-15551200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr9:15549800-15551600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:15550000-15551800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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