Variant report

Variant	rs7524972
Chromosome Location	chr1:175957897-175957898
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:175948120..175950951-chr1:175956152..175957990,2	MCF-7	breast:

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10436864	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10737315	0.95[ASN][1000 genomes]
rs10737316	0.81[ASN][1000 genomes]
rs10753111	0.88[ASN][1000 genomes]
rs10798427	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10798428	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10798431	0.81[ASN][1000 genomes]
rs10798432	0.86[ASN][1000 genomes]
rs10798433	0.81[ASN][1000 genomes]
rs1155229	0.97[ASN][1000 genomes]
rs12038027	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1357337	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17351808	0.82[EUR][1000 genomes]
rs1770643	0.83[AMR][1000 genomes]
rs2481627	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2481634	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2481647	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2481651	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2481657	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2502822	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2502826	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2502830	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2502832	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2502836	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2502841	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2502842	0.83[AMR][1000 genomes]
rs2502847	0.83[AMR][1000 genomes]
rs2861630	0.82[EUR][1000 genomes]
rs4129061	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4304533	0.81[ASN][1000 genomes]
rs4307526	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4314844	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4460596	0.90[EUR][1000 genomes]
rs4601543	0.82[EUR][1000 genomes]
rs4603086	0.83[AMR][1000 genomes]
rs4652143	0.92[ASN][1000 genomes]
rs471534	0.83[AMR][1000 genomes]
rs553852	0.83[AMR][1000 genomes]
rs56367284	0.83[AMR][1000 genomes]
rs60964243	0.89[EUR][1000 genomes]
rs61186664	0.82[EUR][1000 genomes]
rs611883	0.83[AMR][1000 genomes]
rs61820953	0.89[EUR][1000 genomes]
rs61820960	0.86[EUR][1000 genomes]
rs61820965	0.82[EUR][1000 genomes]
rs61820968	0.82[EUR][1000 genomes]
rs61821029	0.83[AMR][1000 genomes]
rs61822767	0.86[EUR][1000 genomes]
rs6425367	0.95[ASN][1000 genomes]
rs6425368	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6425370	0.81[ASN][1000 genomes]
rs6661828	0.95[ASN][1000 genomes]
rs6680309	0.84[EUR][1000 genomes]
rs6684747	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6687043	0.95[ASN][1000 genomes]
rs6688211	0.95[ASN][1000 genomes]
rs6704509	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs704827	0.86[AMR][1000 genomes]
rs74127150	0.84[EUR][1000 genomes]
rs74127154	0.89[EUR][1000 genomes]
rs7517351	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7537435	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7537480	0.97[ASN][1000 genomes]
rs7539247	1.00[ASN][1000 genomes]
rs7543769	0.81[ASN][1000 genomes]
rs7545043	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7545639	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7552181	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7553184	1.00[ASN][1000 genomes]
rs7554913	0.83[EUR][1000 genomes]
rs791744	0.83[AMR][1000 genomes]
rs791801	0.83[AMR][1000 genomes]
rs9783047	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1823794	chr1:175869554-176311778	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv872561	chr1:175949646-176092167	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv872562	chr1:175949646-176141866	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv872563	chr1:175949646-176184625	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175906400-175962600	Weak transcription	NH-A	brain
2	chr1:175908000-175959400	Weak transcription	NHEK	skin
3	chr1:175946000-175996000	Weak transcription	HMEC	breast
4	chr1:175948200-175961400	Weak transcription	NHLF	lung
5	chr1:175949200-175958600	Strong transcription	Primary neutrophils fromperipheralblood	blood
6	chr1:175949200-175958600	Strong transcription	Primary T cells fromperipheralblood	blood
7	chr1:175950000-175961200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:175951600-175958600	Weak transcription	Fetal Heart	heart
9	chr1:175952000-175958000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr1:175952600-175958800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr1:175953000-175958000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr1:175953000-175958200	Strong transcription	Primary T killer memory cells from peripheral blood	blood
13	chr1:175953200-175960000	Weak transcription	Fetal Brain Male	brain
14	chr1:175953600-175958600	Strong transcription	Duodenum Smooth Muscle	Duodenum
15	chr1:175953600-175960800	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr1:175953800-175958000	Strong transcription	Fetal Thymus	thymus
17	chr1:175953800-175958400	Weak transcription	Small Intestine	intestine
18	chr1:175953800-175958600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr1:175953800-175958600	Strong transcription	Adipose Nuclei	Adipose
20	chr1:175953800-175958800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr1:175953800-175959000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr1:175953800-175959000	Weak transcription	HUVEC	blood vessel
23	chr1:175953800-175961000	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr1:175953800-175962000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr1:175953800-175999600	Weak transcription	Colonic Mucosa	Colon
26	chr1:175954000-175958000	Strong transcription	Primary T cells from cord blood	blood
27	chr1:175954000-175958200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
28	chr1:175954000-175958400	Strong transcription	Placenta	Placenta
29	chr1:175954000-175958600	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr1:175954000-175958600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr1:175954000-175958600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr1:175954000-175958600	Strong transcription	Ovary	ovary
33	chr1:175954000-175958800	Weak transcription	Brain Cingulate Gyrus	brain
34	chr1:175954000-175958800	Weak transcription	Pancreas	Pancrea
35	chr1:175954000-175959000	Weak transcription	Aorta	Aorta
36	chr1:175954000-175959000	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr1:175954000-175959400	Weak transcription	Spleen	Spleen
38	chr1:175954000-175959600	Weak transcription	Rectal Smooth Muscle	rectum
39	chr1:175954000-175959800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr1:175954000-175960000	Weak transcription	Fetal Stomach	stomach
41	chr1:175954000-175960200	Weak transcription	Gastric	stomach
42	chr1:175954000-175960200	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr1:175954000-175961000	Weak transcription	Esophagus	oesophagus
44	chr1:175954000-175962000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr1:175954000-175962000	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr1:175954000-175963600	Weak transcription	Lung	lung
47	chr1:175954000-175977800	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr1:175954000-175978000	Weak transcription	Left Ventricle	heart
49	chr1:175954000-175987800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr1:175954200-175958600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links