Variant report

Variant	rs7869341
Chromosome Location	chr9:108620328-108620329
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108620154..108622935-chr9:108637426..108639218,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10739214	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759147	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10816349	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10816350	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10978309	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10978310	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10978311	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10978312	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10978313	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1806663	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1806664	0.98[ASN][1000 genomes]
rs2417646	0.96[ASN][1000 genomes]
rs2417647	0.96[ASN][1000 genomes]
rs28534814	0.94[ASN][1000 genomes]
rs2997726	0.96[ASN][1000 genomes]
rs2997727	0.97[ASN][1000 genomes]
rs3010415	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3010964	0.86[ASN][1000 genomes]
rs3105991	0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7019053	0.95[ASN][1000 genomes]
rs7024988	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7030636	1.00[ASN][1000 genomes]
rs71501939	0.95[ASN][1000 genomes]
rs7854091	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7854144	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7862281	0.94[ASN][1000 genomes]
rs7865672	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs7869461	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9299115	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893693	chr9:108427062-108683134	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv893694	chr9:108486533-108854018	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1041073	chr9:108535813-108731343	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1036849	chr9:108582944-108651205	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1052684	chr9:108582944-108730280	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv615140	chr9:108592589-108725567	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv831679	chr9:108603112-108785347	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108618800-108620400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr9:108619200-108620600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:108619200-108622200	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr9:108619400-108620600	Enhancers	Primary T cells from cord blood	blood
5	chr9:108619600-108621000	Enhancers	Dnd41	blood
6	chr9:108619800-108620600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr9:108620000-108621800	Enhancers	Primary B cells from cord blood	blood
8	chr9:108620000-108622400	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr9:108620000-108622400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr9:108620200-108621000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr9:108620200-108621200	Enhancers	Thymus	Thymus
12	chr9:108620200-108621400	Enhancers	Primary T cells fromperipheralblood	blood
13	chr9:108620200-108621600	Enhancers	Primary B cells from peripheral blood	blood
14	chr9:108620200-108621600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:108620200-108622000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr9:108620200-108622000	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr9:108620200-108622000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:108620200-108622000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr9:108620200-108622200	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr9:108620200-108622400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr9:108620200-108622400	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr9:108620200-108622400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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