Variant report

Variant	rs7028089
Chromosome Location	chr9:117677825-117677826
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:117676811..117678604-chr9:117693310..117696147,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10118244	0.85[CEU][hapmap];0.92[EUR][1000 genomes]
rs10124990	0.85[CEU][hapmap];0.92[EUR][1000 genomes]
rs10817681	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10982443	0.96[EUR][1000 genomes]
rs10982448	1.00[CEU][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1108983	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12349613	1.00[CHD][hapmap]
rs1885383	0.98[AFR][1000 genomes]
rs3181192	0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs3181194	0.87[CEU][hapmap];0.88[YRI][hapmap]
rs3181346	0.88[ASW][hapmap];0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.92[EUR][1000 genomes]
rs3181349	1.00[CEU][hapmap];0.88[YRI][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181350	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181353	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181359	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181362	0.94[ASW][hapmap];0.87[CEU][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap]
rs3789882	0.94[ASW][hapmap];0.87[CEU][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap]
rs61024439	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6478118	0.87[CEU][hapmap];0.88[YRI][hapmap]
rs7854103	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7871914	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831695	chr9:117567626-117726247	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv893767	chr9:117627569-117689838	Bivalent Enhancer Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117667800-117683600	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:117670800-117687200	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr9:117672400-117681600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr9:117672800-117682000	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr9:117672800-117682600	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr9:117673200-117683000	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr9:117673200-117692400	Weak transcription	Spleen	Spleen
8	chr9:117673400-117678800	Weak transcription	Primary B cells from peripheral blood	blood
9	chr9:117674800-117681000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr9:117675000-117680800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr9:117675200-117678600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr9:117675200-117679800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
13	chr9:117675400-117679600	Enhancers	Fetal Lung	lung
14	chr9:117675400-117680400	Strong transcription	Primary B cells from cord blood	blood
15	chr9:117676000-117678000	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr9:117676000-117678600	Weak transcription	Fetal Thymus	thymus
17	chr9:117676000-117688000	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr9:117676400-117678000	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr9:117676400-117678000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
20	chr9:117676600-117678000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:117676600-117680400	Strong transcription	Thymus	Thymus
22	chr9:117676800-117678000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr9:117676800-117678000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr9:117677000-117678000	Genic enhancers	Primary T cells fromperipheralblood	blood
25	chr9:117677000-117678000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
26	chr9:117677000-117678200	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
27	chr9:117677400-117679200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr9:117677600-117678600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr9:117677600-117680400	Strong transcription	Dnd41	blood
30	chr9:117677600-117680600	Strong transcription	Primary T cells from cord blood	blood
31	chr9:117677600-117684400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr9:117677800-117678200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
33	chr9:117677800-117680600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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