Variant report

Variant	rs12571095
Chromosome Location	chr10:52219167-52219168
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	chr10:52218961..52222149-chr10:52229280..52232143,4	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10082515	0.82[AMR][1000 genomes]
rs1028534	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12569801	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12569909	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12573520	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16937491	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16937722	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16937771	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16937775	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16937786	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17179881	0.86[ASN][1000 genomes]
rs1880071	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2064760	0.94[ASN][1000 genomes]
rs2983346	0.91[ASN][1000 genomes]
rs2983349	0.94[ASN][1000 genomes]
rs3739990	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs41427847	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57015168	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57748270	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57999700	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58383805	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58642196	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59510112	0.88[ASN][1000 genomes]
rs59512026	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66546375	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67761241	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73332935	0.82[AMR][1000 genomes]
rs910818	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52178400-52220000	Weak transcription	Pancreas	Pancrea
2	chr10:52178600-52219400	Weak transcription	Left Ventricle	heart
3	chr10:52181600-52219400	Weak transcription	Placenta	Placenta
4	chr10:52182200-52220000	Weak transcription	Fetal Stomach	stomach
5	chr10:52191800-52219600	Weak transcription	Fetal Lung	lung
6	chr10:52192000-52219600	Weak transcription	Adipose Nuclei	Adipose
7	chr10:52192400-52219400	Weak transcription	Liver	Liver
8	chr10:52192400-52219600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr10:52192400-52219600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:52192400-52220000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr10:52192400-52229400	Weak transcription	Aorta	Aorta
12	chr10:52192400-52230400	Weak transcription	HSMM	muscle
13	chr10:52197800-52229800	Weak transcription	Gastric	stomach
14	chr10:52203000-52219400	Weak transcription	Ovary	ovary
15	chr10:52203200-52219400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr10:52203800-52219400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr10:52204400-52228600	Weak transcription	NHDF-Ad	bronchial
18	chr10:52206600-52219400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr10:52206600-52219600	Weak transcription	Fetal Intestine Large	intestine
20	chr10:52207200-52219400	Weak transcription	Fetal Muscle Leg	muscle
21	chr10:52207800-52219600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr10:52207800-52220000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr10:52207800-52221800	Weak transcription	Psoas Muscle	Psoas
24	chr10:52208000-52219400	Weak transcription	Primary T cells from cord blood	blood
25	chr10:52208000-52219600	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr10:52208000-52219600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr10:52208000-52219600	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr10:52208000-52219600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr10:52208000-52219600	Weak transcription	Thymus	Thymus
30	chr10:52208000-52240200	Weak transcription	Esophagus	oesophagus
31	chr10:52208200-52229600	Weak transcription	Right Ventricle	heart
32	chr10:52208400-52230400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr10:52208800-52219400	Weak transcription	Fetal Muscle Trunk	muscle
34	chr10:52209600-52220000	Weak transcription	Spleen	Spleen
35	chr10:52209600-52229200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr10:52209800-52219800	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr10:52211600-52219600	Weak transcription	Brain Cingulate Gyrus	brain
38	chr10:52211600-52223800	Weak transcription	Colon Smooth Muscle	Colon
39	chr10:52211800-52229400	Weak transcription	NHEK	skin
40	chr10:52212400-52219400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr10:52212600-52219600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr10:52212800-52219600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr10:52212800-52219600	Weak transcription	Brain Substantia Nigra	brain
44	chr10:52212800-52229400	Weak transcription	Primary hematopoietic stem cells	blood
45	chr10:52212800-52229600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr10:52214200-52219400	Weak transcription	Brain Hippocampus Middle	brain
47	chr10:52214200-52219800	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr10:52215000-52219600	Weak transcription	Fetal Heart	heart
49	chr10:52215000-52230400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr10:52215200-52219400	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links