Variant report

Variant	rs6594051
Chromosome Location	chr2:110395748-110395749
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:110393131..110396095-chr2:110402079..110403755,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1434168	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28513171	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28520382	0.82[ASN][1000 genomes]
rs28526306	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28634501	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28812293	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4953844	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6594052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6732116	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7580778	0.85[EUR][1000 genomes]
rs990967	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874777	chr2:109825516-110693317	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv874780	chr2:110078080-110432886	Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1011456	chr2:110290958-110980402	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv535861	chr2:110290958-110980402	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv482469	chr2:110302488-110452580	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv1009367	chr2:110349178-110863354	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
7	esv2762780	chr2:110367969-110462496	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv491837	chr2:110381297-110964737	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:110392800-110396800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr2:110393800-110402200	Weak transcription	Fetal Thymus	thymus
3	chr2:110393800-110402600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:110395000-110396800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr2:110395200-110395800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr2:110395200-110395800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr2:110395200-110396400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr2:110395200-110396800	Enhancers	Adipose Nuclei	Adipose
9	chr2:110395200-110396800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr2:110395400-110395800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
11	chr2:110395400-110396200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr2:110395400-110396200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr2:110395400-110396200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr2:110395400-110396200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr2:110395400-110396200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr2:110395400-110396200	Enhancers	Placenta	Placenta
17	chr2:110395400-110396200	Enhancers	Stomach Mucosa	stomach
18	chr2:110395400-110396200	Flanking Active TSS	GM12878-XiMat	blood
19	chr2:110395400-110396400	Enhancers	NHEK	skin
20	chr2:110395400-110396800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr2:110395400-110396800	Enhancers	Hela-S3	cervix
22	chr2:110395400-110397000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr2:110395600-110396000	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
24	chr2:110395600-110396000	Enhancers	Fetal Lung	lung
25	chr2:110395600-110396000	Weak transcription	Lung	lung
26	chr2:110395600-110396200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
27	chr2:110395600-110396400	Enhancers	Liver	Liver
28	chr2:110395600-110396400	Enhancers	Osteobl	bone
29	chr2:110395600-110396600	Enhancers	Brain Hippocampus Middle	brain
30	chr2:110395600-110396600	Enhancers	Small Intestine	intestine
31	chr2:110395600-110396600	Flanking Active TSS	HepG2	liver
32	chr2:110395600-110396800	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links