Variant report

Variant	rs11070198
Chromosome Location	chr15:39704124-39704125
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	chr15:39696668..39698687-chr15:39702884..39705384,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10520130	0.84[EUR][1000 genomes]
rs11070206	0.84[EUR][1000 genomes]
rs11855543	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11857970	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12148631	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16969038	0.83[ASN][1000 genomes]
rs3889532	0.84[EUR][1000 genomes]
rs4923830	0.80[ASN][1000 genomes]
rs5028679	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56839831	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56869025	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57248361	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58417285	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs59068114	0.94[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61648928	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73393497	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs74008125	0.81[EUR][1000 genomes]
rs74008128	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8032303	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1042824	chr15:39676039-39757222	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv542362	chr15:39676039-39757222	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1047032	chr15:39679896-39706685	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv1052908	chr15:39692049-39750193	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1044082	chr15:39693241-39750193	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1036091	chr15:39699841-39750193	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39697600-39705000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr15:39700000-39707800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:39702000-39704400	Enhancers	NHDF-Ad	bronchial
4	chr15:39702400-39705600	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr15:39702400-39706000	Enhancers	HMEC	breast
6	chr15:39702600-39705000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:39702600-39706000	Enhancers	NHEK	skin
8	chr15:39702800-39706200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:39703000-39704200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:39703200-39704400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:39703200-39708000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:39703200-39708600	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr15:39703400-39706600	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr15:39703600-39704200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:39703600-39704200	Enhancers	Fetal Thymus	thymus
16	chr15:39703600-39704600	Enhancers	Primary T cells from cord blood	blood
17	chr15:39703800-39704200	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr15:39703800-39704200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
19	chr15:39703800-39704200	Enhancers	Thymus	Thymus
20	chr15:39703800-39704400	Enhancers	Osteobl	bone
21	chr15:39703800-39704600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr15:39703800-39705000	Enhancers	Primary hematopoietic stem cells	blood
23	chr15:39703800-39705200	Enhancers	Monocytes-CD14+_RO01746	blood
24	chr15:39703800-39706400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:39703800-39706800	Weak transcription	HepG2	liver
26	chr15:39704000-39704200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
27	chr15:39704000-39704200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr15:39704000-39706600	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links