Variant report

Variant	rs28536568
Chromosome Location	chr9:110572409-110572410
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	chr9:110248750..110252059-chr9:110568258..110573167,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12339041	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12346754	0.92[AFR][1000 genomes]
rs12348250	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1403854	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1829915	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28795700	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7042211	0.94[ASN][1000 genomes]
rs9632903	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9632904	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv1051101	chr9:110548257-110697253	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110571200-110573200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr9:110571600-110573800	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr9:110571800-110573400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:110572000-110572800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr9:110572000-110573200	Enhancers	Osteobl	bone
6	chr9:110572000-110573400	Enhancers	HMEC	breast
7	chr9:110572000-110573600	Enhancers	HSMM	muscle
8	chr9:110572200-110572600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:110572200-110573000	Enhancers	Adipose Nuclei	Adipose
10	chr9:110572200-110573200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:110572200-110573200	Enhancers	Sigmoid Colon	Sigmoid Colon
12	chr9:110572200-110573200	Enhancers	NHDF-Ad	bronchial
13	chr9:110572200-110573400	Enhancers	HSMMtube	muscle
14	chr9:110572200-110573600	Enhancers	Muscle Satellite Cultured Cells	--
15	chr9:110572400-110572600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr9:110572400-110572800	Enhancers	Colon Smooth Muscle	Colon
17	chr9:110572400-110572800	Enhancers	Duodenum Mucosa	Duodenum
18	chr9:110572400-110572800	Enhancers	Esophagus	oesophagus
19	chr9:110572400-110572800	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr9:110572400-110572800	Enhancers	NHEK	skin
21	chr9:110572400-110573000	Enhancers	Fetal Stomach	stomach
22	chr9:110572400-110573200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr9:110572400-110573200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr9:110572400-110573200	Enhancers	NHLF	lung
25	chr9:110572400-110573400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr9:110572400-110574000	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links