Variant report

Variant	rs35971217
Chromosome Location	chr4:15400473-15400474
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	chr4:15400431..15401971-chr4:15403659..15405343,2	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10002931	0.84[EUR][1000 genomes]
rs10003338	0.85[EUR][1000 genomes]
rs10032941	0.83[EUR][1000 genomes]
rs10212844	0.85[EUR][1000 genomes]
rs10212901	0.84[EUR][1000 genomes]
rs10213628	0.85[EUR][1000 genomes]
rs1024758	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1024759	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10461112	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10488970	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11934015	0.84[EUR][1000 genomes]
rs11937671	0.85[EUR][1000 genomes]
rs12233742	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13104095	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13106702	0.85[EUR][1000 genomes]
rs13114788	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13120744	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13123050	0.89[ASN][1000 genomes]
rs13123785	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13124324	0.85[EUR][1000 genomes]
rs13124984	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13129124	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13132007	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13132446	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13132604	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13138481	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13138554	0.88[ASN][1000 genomes]
rs16891929	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16891934	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16891939	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16891945	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17469724	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1990524	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2192355	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2192364	0.85[EUR][1000 genomes]
rs28376639	0.85[EUR][1000 genomes]
rs28561808	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2872704	0.85[EUR][1000 genomes]
rs34028526	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34351987	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34352292	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34400909	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34496443	0.89[ASN][1000 genomes]
rs35301498	0.89[ASN][1000 genomes]
rs35465107	0.87[ASN][1000 genomes]
rs35539860	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35866305	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3797006	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3822296	0.84[EUR][1000 genomes]
rs58479200	0.89[ASN][1000 genomes]
rs59684117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61240629	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62289285	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6449138	0.85[EUR][1000 genomes]
rs66696244	0.88[ASN][1000 genomes]
rs67391897	0.90[ASN][1000 genomes]
rs68012715	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6828721	0.85[EUR][1000 genomes]
rs6855244	0.85[EUR][1000 genomes]
rs71601473	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs71601477	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs722235	0.87[ASN][1000 genomes]
rs7442554	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7681816	0.84[EUR][1000 genomes]
rs7687272	0.85[EUR][1000 genomes]
rs7690471	0.85[EUR][1000 genomes]
rs7697778	0.85[EUR][1000 genomes]
rs9991652	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers 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	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15378600-15401200	Weak transcription	Primary B cells from cord blood	blood
2	chr4:15384400-15402000	Weak transcription	Fetal Lung	lung
3	chr4:15388400-15401800	Weak transcription	Fetal Stomach	stomach
4	chr4:15394400-15401600	Weak transcription	HSMMtube	muscle
5	chr4:15394400-15402400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr4:15397000-15402200	Weak transcription	Right Atrium	heart
7	chr4:15397600-15400600	Weak transcription	Fetal Kidney	kidney
8	chr4:15398000-15401400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr4:15398000-15402200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr4:15398200-15401800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr4:15399000-15402200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr4:15399000-15402400	Enhancers	Hela-S3	cervix
13	chr4:15399000-15405200	Enhancers	Placenta Amnion	Placenta Amnion
14	chr4:15399200-15401200	Enhancers	HMEC	breast
15	chr4:15399200-15402400	Enhancers	NHEK	skin
16	chr4:15399400-15400800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:15399600-15400800	Enhancers	Aorta	Aorta
18	chr4:15399600-15402200	Enhancers	Stomach Smooth Muscle	stomach
19	chr4:15399800-15400600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr4:15399800-15401000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr4:15400000-15400600	Enhancers	Lung	lung
22	chr4:15400000-15401000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr4:15400000-15401000	Enhancers	Esophagus	oesophagus
24	chr4:15400000-15402400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr4:15400000-15402400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:15400000-15402800	Enhancers	Colon Smooth Muscle	Colon
27	chr4:15400000-15405400	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr4:15400200-15400600	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr4:15400200-15400600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr4:15400200-15400800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
31	chr4:15400200-15400800	Enhancers	Adipose Nuclei	Adipose
32	chr4:15400200-15401200	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr4:15400200-15401400	Weak transcription	NHLF	lung
34	chr4:15400200-15402000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
35	chr4:15400200-15402000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr4:15400200-15402000	Weak transcription	NHDF-Ad	bronchial
37	chr4:15400200-15402200	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr4:15400200-15402800	Enhancers	Primary T cells from cord blood	blood
39	chr4:15400200-15403200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr4:15400200-15403200	Enhancers	Ovary	ovary
41	chr4:15400200-15403400	Enhancers	Primary B cells from peripheral blood	blood
42	chr4:15400200-15405000	Enhancers	Primary hematopoietic stem cells	blood
43	chr4:15400400-15400800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr4:15400400-15400800	Enhancers	Spleen	Spleen
45	chr4:15400400-15401400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr4:15400400-15401400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr4:15400400-15401600	Weak transcription	Osteobl	bone
48	chr4:15400400-15401800	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr4:15400400-15402200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr4:15400400-15402600	Enhancers	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links