Variant report

Variant	rs61024439
Chromosome Location	chr9:117689548-117689549
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	chr9:117685063..117687885-chr9:117689510..117691619,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10118244	0.92[EUR][1000 genomes]
rs10124990	0.92[EUR][1000 genomes]
rs10817681	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10982443	0.96[EUR][1000 genomes]
rs10982448	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1108983	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3181192	0.92[EUR][1000 genomes]
rs3181194	0.88[AFR][1000 genomes]
rs3181346	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3181349	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181350	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181353	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181357	0.91[AFR][1000 genomes]
rs3181359	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181360	0.98[AFR][1000 genomes]
rs3181362	0.90[AFR][1000 genomes]
rs3789882	0.88[AFR][1000 genomes]
rs4978612	0.98[AFR][1000 genomes]
rs6478118	0.86[AFR][1000 genomes]
rs7028089	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7854103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7868670	0.90[AFR][1000 genomes]
rs7871914	0.92[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:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117673200-117692400	Weak transcription	Spleen	Spleen
2	chr9:117680200-117690400	Weak transcription	Fetal Thymus	thymus
3	chr9:117680800-117689600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr9:117682000-117689600	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr9:117682400-117689800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr9:117684400-117689600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:117687400-117690200	Weak transcription	Liver	Liver
8	chr9:117687800-117689600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr9:117687800-117689600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr9:117687800-117693400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:117688000-117689600	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr9:117688200-117689600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr9:117688400-117693000	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr9:117688600-117689800	Weak transcription	Adipose Nuclei	Adipose
15	chr9:117688600-117692800	Weak transcription	Fetal Lung	lung
16	chr9:117688800-117689600	Weak transcription	Primary B cells from cord blood	blood
17	chr9:117688800-117689600	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr9:117688800-117689600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr9:117688800-117690400	Weak transcription	Primary B cells from peripheral blood	blood
20	chr9:117688800-117691000	Weak transcription	Placenta	Placenta
21	chr9:117689000-117689600	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr9:117689000-117689600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr9:117689000-117689600	Active TSS	Primary T helper cells PMA-I stimulated	--
24	chr9:117689000-117689600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
25	chr9:117689000-117693400	Active TSS	Thymus	Thymus
26	chr9:117689400-117689600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
27	chr9:117689400-117689600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr9:117689400-117690200	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
29	chr9:117689400-117690200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
30	chr9:117689400-117690400	Enhancers	Primary hematopoietic stem cells	blood
31	chr9:117689400-117690600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
32	chr9:117689400-117691200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr9:117689400-117691400	Flanking Active TSS	Primary T cells from cord blood	blood
34	chr9:117689400-117692000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
35	chr9:117689400-117693600	Flanking Active TSS	Dnd41	blood

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