Variant report

Variant	rs11099791
Chromosome Location	chr4:152117445-152117446
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	chr4:152116628..152118796-chr4:152119298..152121521,2	MCF-7	breast:

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10000557	1.00[ASN][1000 genomes]
rs10001039	1.00[ASN][1000 genomes]
rs10005907	0.97[ASN][1000 genomes]
rs10011421	0.90[ASN][1000 genomes]
rs10016998	0.93[ASN][1000 genomes]
rs10030785	0.98[ASN][1000 genomes]
rs10032477	0.93[ASN][1000 genomes]
rs10213332	0.93[ASN][1000 genomes]
rs1046168	0.93[ASN][1000 genomes]
rs10776521	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10776523	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10857254	0.95[ASN][1000 genomes]
rs10857255	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10857256	0.83[ASN][1000 genomes]
rs10964	0.93[ASN][1000 genomes]
rs11099782	0.84[ASN][1000 genomes]
rs11099783	0.93[ASN][1000 genomes]
rs11099787	0.95[ASN][1000 genomes]
rs11099788	1.00[ASN][1000 genomes]
rs11099790	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11099794	0.93[ASN][1000 genomes]
rs11099795	0.93[ASN][1000 genomes]
rs11723219	0.93[ASN][1000 genomes]
rs11726180	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11729981	0.93[ASN][1000 genomes]
rs11730087	0.93[ASN][1000 genomes]
rs11734586	1.00[ASN][1000 genomes]
rs11938266	0.93[ASN][1000 genomes]
rs11943477	0.90[ASN][1000 genomes]
rs12500168	1.00[ASN][1000 genomes]
rs12500223	0.93[ASN][1000 genomes]
rs12507657	0.93[ASN][1000 genomes]
rs13123932	0.97[ASN][1000 genomes]
rs13149045	0.93[ASN][1000 genomes]
rs1316364	0.93[ASN][1000 genomes]
rs1320006	0.93[ASN][1000 genomes]
rs1320007	0.93[ASN][1000 genomes]
rs1320192	0.93[ASN][1000 genomes]
rs1878796	0.93[ASN][1000 genomes]
rs2407406	0.93[ASN][1000 genomes]
rs2407411	0.93[ASN][1000 genomes]
rs2407414	0.93[ASN][1000 genomes]
rs2407415	0.93[ASN][1000 genomes]
rs2407424	1.00[ASN][1000 genomes]
rs2407425	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2407426	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2407427	0.85[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2407428	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2407429	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2407430	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2407439	0.93[ASN][1000 genomes]
rs2407440	0.95[ASN][1000 genomes]
rs2407441	0.88[ASN][1000 genomes]
rs2897657	0.93[ASN][1000 genomes]
rs2897660	0.95[ASN][1000 genomes]
rs4434229	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4616734	0.93[ASN][1000 genomes]
rs4640649	0.90[ASN][1000 genomes]
rs4696226	0.80[ASN][1000 genomes]
rs4696227	0.80[ASN][1000 genomes]
rs4696229	0.90[ASN][1000 genomes]
rs4696235	0.93[ASN][1000 genomes]
rs4696237	0.93[ASN][1000 genomes]
rs6535765	0.83[ASN][1000 genomes]
rs6535766	0.93[ASN][1000 genomes]
rs6535767	0.95[ASN][1000 genomes]
rs6535775	0.88[ASN][1000 genomes]
rs6535776	0.93[ASN][1000 genomes]
rs6812695	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6815608	0.86[ASN][1000 genomes]
rs6823953	0.93[ASN][1000 genomes]
rs6825613	0.95[ASN][1000 genomes]
rs6825952	0.95[ASN][1000 genomes]
rs6828937	0.93[ASN][1000 genomes]
rs6829963	0.95[ASN][1000 genomes]
rs6837905	1.00[ASN][1000 genomes]
rs6838301	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs6838845	0.93[ASN][1000 genomes]
rs6847669	0.93[ASN][1000 genomes]
rs6853215	0.93[ASN][1000 genomes]
rs6856569	0.86[ASN][1000 genomes]
rs7659146	0.93[ASN][1000 genomes]
rs7666751	0.93[ASN][1000 genomes]
rs7668154	0.95[ASN][1000 genomes]
rs7681030	0.93[ASN][1000 genomes]
rs7683092	0.93[ASN][1000 genomes]
rs7687117	0.93[ASN][1000 genomes]
rs7689095	0.93[ASN][1000 genomes]
rs7690329	0.93[ASN][1000 genomes]
rs7695005	0.93[ASN][1000 genomes]
rs938990	0.80[AFR][1000 genomes];0.93[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	nsv1034948	chr4:151590115-152202687	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv537302	chr4:151590115-152202687	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv530159	chr4:151624865-152203910	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv948719	chr4:151693149-152161625	Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv880262	chr4:151712054-152519899	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
6	nsv881526	chr4:151968295-152489087	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv1016220	chr4:151997139-152164126	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
8	nsv537306	chr4:151997139-152164126	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
9	nsv870229	chr4:152114410-152161072	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152096600-152118000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:152096800-152120600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:152097200-152123600	Weak transcription	Pancreas	Pancrea
4	chr4:152097200-152136600	Weak transcription	Colonic Mucosa	Colon
5	chr4:152097400-152123600	Weak transcription	Aorta	Aorta
6	chr4:152097600-152128800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr4:152097800-152120000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr4:152098200-152118400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr4:152098400-152118400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr4:152098400-152147200	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr4:152100600-152118000	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr4:152107200-152120000	Weak transcription	HepG2	liver
13	chr4:152112200-152120000	Weak transcription	Right Ventricle	heart
14	chr4:152112400-152120600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:152112800-152120000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr4:152113400-152124400	Weak transcription	Fetal Intestine Small	intestine
17	chr4:152114800-152118200	Weak transcription	HSMMtube	muscle
18	chr4:152115000-152118200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr4:152115000-152124000	Weak transcription	Psoas Muscle	Psoas
20	chr4:152115600-152119800	Enhancers	Placenta Amnion	Placenta Amnion
21	chr4:152116400-152117600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr4:152116600-152117600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr4:152116600-152117600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr4:152116600-152117600	Enhancers	Placenta	Placenta
25	chr4:152116600-152117600	Enhancers	NH-A	brain
26	chr4:152116600-152117800	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr4:152116600-152118200	Enhancers	Adipose Nuclei	Adipose
28	chr4:152116600-152118800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr4:152116600-152118800	Enhancers	Osteobl	bone
30	chr4:152116600-152120400	Weak transcription	Ovary	ovary
31	chr4:152116600-152120600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:152116800-152117600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
33	chr4:152116800-152117600	Enhancers	Fetal Lung	lung
34	chr4:152117000-152117600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr4:152117000-152117600	Flanking Active TSS	NHDF-Ad	bronchial
36	chr4:152117000-152118800	Enhancers	Brain Anterior Caudate	brain
37	chr4:152117000-152118800	Enhancers	HSMM	muscle
38	chr4:152117200-152117600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr4:152117200-152117600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr4:152117200-152117600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr4:152117200-152117600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr4:152117200-152117600	Enhancers	Colon Smooth Muscle	Colon
43	chr4:152117200-152117600	Enhancers	Lung	lung
44	chr4:152117200-152117600	Enhancers	A549	lung
45	chr4:152117200-152117600	Flanking Active TSS	NHEK	skin
46	chr4:152117200-152117600	Enhancers	NHLF	lung
47	chr4:152117200-152117800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr4:152117200-152117800	Enhancers	Brain Hippocampus Middle	brain
49	chr4:152117200-152117800	Enhancers	Brain Inferior Temporal Lobe	brain
50	chr4:152117200-152117800	Enhancers	Fetal Heart	heart

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