Variant report

Variant	rs28399092
Chromosome Location	chr9:110546232-110546233
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	chr9:110517822..110519331-chr9:110545952..110548715,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10117695	0.88[AFR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10118587	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759258	0.84[AFR][1000 genomes]
rs12337757	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12339291	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12343121	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12347133	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12348910	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12348975	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1330149	0.91[AFR][1000 genomes]
rs1411357	0.87[AFR][1000 genomes]
rs17625771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1831382	0.80[AFR][1000 genomes]
rs2140480	0.82[AFR][1000 genomes]
rs28376933	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28784969	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4979370	0.91[AFR][1000 genomes]
rs57874597	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][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	nsv427850	chr9:110456613-110632324	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv428221	chr9:110456613-110632324	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110536600-110546600	Weak transcription	Spleen	Spleen
2	chr9:110541400-110547400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr9:110542000-110547400	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr9:110543600-110547800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr9:110544200-110548000	Enhancers	Fetal Muscle Leg	muscle
6	chr9:110544200-110549200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:110544800-110547800	Enhancers	Fetal Intestine Large	intestine
8	chr9:110544800-110549200	Enhancers	Placenta	Placenta
9	chr9:110545000-110546600	Weak transcription	Left Ventricle	heart
10	chr9:110545200-110546400	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr9:110545200-110546400	Weak transcription	Osteobl	bone
12	chr9:110545200-110546600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr9:110545200-110546600	Weak transcription	HSMM	muscle
14	chr9:110545200-110546600	Weak transcription	HSMMtube	muscle
15	chr9:110545200-110547400	Enhancers	Monocytes-CD14+_RO01746	blood
16	chr9:110545400-110546400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr9:110545400-110546600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:110545800-110546800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr9:110545800-110547000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr9:110546000-110546400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr9:110546000-110546400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:110546000-110546600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr9:110546000-110546600	Enhancers	Fetal Muscle Trunk	muscle
24	chr9:110546000-110547600	Enhancers	Fetal Intestine Small	intestine
25	chr9:110546000-110549000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr9:110546200-110547400	Flanking Active TSS	K562	blood
27	chr9:110546200-110547800	Enhancers	NHDF-Ad	bronchial

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