Variant report

Variant	rs7029840
Chromosome Location	chr9:2677429-2677430
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:2672525..2674889-chr9:2677080..2679041,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11787847	0.98[EUR][1000 genomes]
rs11788193	0.94[EUR][1000 genomes]
rs11788351	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11789745	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11793970	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11794855	0.97[ASN][1000 genomes]
rs12347630	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1542358	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16909038	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5023561	0.81[AFR][1000 genomes]
rs56836371	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475921	0.97[ASN][1000 genomes]
rs6475922	0.97[ASN][1000 genomes]
rs6475923	1.00[EUR][1000 genomes]
rs6475925	0.82[ASN][1000 genomes]
rs6475926	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6475927	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6475932	0.83[AFR][1000 genomes]
rs7029311	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7031045	0.95[ASN][1000 genomes]
rs7031441	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7041786	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7044724	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7046015	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7047154	0.81[ASN][1000 genomes]
rs7048329	0.82[AFR][1000 genomes]
rs748787	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7847455	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859818	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7870258	0.94[AFR][1000 genomes]
rs7870360	0.85[AFR][1000 genomes]
rs7874073	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv530929	chr9:1998911-2925112	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers 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 miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv529508	chr9:2267812-2684272	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv916750	chr9:2430846-2826706	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv531564	chr9:2452325-2700375	Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv892077	chr9:2663639-2690980	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv892078	chr9:2668085-2705874	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2656000-2677800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr9:2674400-2677800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr9:2674400-2678200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:2675800-2678600	Enhancers	Stomach Mucosa	stomach
5	chr9:2676200-2678200	Weak transcription	Psoas Muscle	Psoas
6	chr9:2676600-2677800	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr9:2676800-2677800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr9:2677000-2677600	Weak transcription	A549	lung
9	chr9:2677200-2677800	Weak transcription	HepG2	liver
10	chr9:2677200-2678200	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr9:2677400-2678400	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr9:2677400-2678400	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr9:2677400-2678800	Enhancers	HUES48 Cell Line	embryonic stem cell

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