Variant report

Variant	rs10166642
Chromosome Location	chr2:173558361-173558362
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:173558154..173560301-chr2:173561566..173564675,4	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10166107	0.86[EUR][1000 genomes]
rs10172894	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs10190099	0.96[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10198425	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs10198426	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs10198546	0.85[EUR][1000 genomes]
rs10205076	0.82[EUR][1000 genomes]
rs10205126	0.80[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs10210195	0.96[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs10930569	0.83[AFR][1000 genomes]
rs11887904	0.82[EUR][1000 genomes]
rs11888564	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11891071	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11894913	0.96[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11897396	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs11898565	0.97[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11899594	0.97[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs11902043	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12328591	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12328781	0.85[EUR][1000 genomes]
rs12329241	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13384609	0.82[EUR][1000 genomes]
rs13387816	0.82[EUR][1000 genomes]
rs13389072	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13400719	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13408965	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13411408	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs13417913	0.85[EUR][1000 genomes]
rs13420845	0.96[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13422388	0.82[EUR][1000 genomes]
rs13423248	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13425350	0.82[EUR][1000 genomes]
rs13427701	0.95[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13427921	0.96[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs13428122	0.84[EUR][1000 genomes]
rs13432176	0.96[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1451447	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs1597647	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1839767	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167374	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs28541707	0.83[EUR][1000 genomes]
rs28670307	0.82[EUR][1000 genomes]
rs28690076	0.84[EUR][1000 genomes]
rs3816536	0.80[EUR][1000 genomes]
rs56308044	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57104776	0.96[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs59648896	0.81[EUR][1000 genomes]
rs62168072	0.83[EUR][1000 genomes]
rs62169319	0.82[EUR][1000 genomes]
rs62169322	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs62169324	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs62169325	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6717366	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6717851	0.80[EUR][1000 genomes]
rs6724116	0.85[EUR][1000 genomes]
rs6741433	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6757567	0.81[EUR][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	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	esv2760591	chr2:173396905-173719520	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv583665	chr2:173460640-173643087	Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	esv274888	chr2:173550156-173559068	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173556600-173559000	Enhancers	Primary T helper naive cells from peripheral blood	blood
2	chr2:173556800-173559400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr2:173556800-173564600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr2:173557200-173559000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr2:173557200-173559000	Enhancers	Primary T cells fromperipheralblood	blood
6	chr2:173557200-173559000	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr2:173557200-173559000	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr2:173557200-173559000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr2:173557200-173559000	Enhancers	HMEC	breast
10	chr2:173557200-173559200	Enhancers	Fetal Heart	heart
11	chr2:173557200-173559400	Enhancers	Muscle Satellite Cultured Cells	--
12	chr2:173557200-173559400	Enhancers	NHDF-Ad	bronchial
13	chr2:173557200-173559400	Enhancers	NHLF	lung
14	chr2:173557400-173558400	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr2:173557400-173558600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr2:173557400-173558800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr2:173557400-173558800	Enhancers	Esophagus	oesophagus
18	chr2:173557400-173558800	Enhancers	Rectal Smooth Muscle	rectum
19	chr2:173557400-173558800	Enhancers	HUVEC	blood vessel
20	chr2:173557400-173558800	Enhancers	NH-A	brain
21	chr2:173557400-173559000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr2:173557400-173559000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr2:173557400-173559000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr2:173557400-173559000	Enhancers	Left Ventricle	heart
25	chr2:173557400-173559000	Enhancers	Right Atrium	heart
26	chr2:173557400-173559000	Enhancers	HSMM	muscle
27	chr2:173557400-173559000	Enhancers	Osteobl	bone
28	chr2:173557400-173559400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr2:173557400-173559600	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr2:173557600-173558400	Enhancers	Colon Smooth Muscle	Colon
31	chr2:173557600-173558600	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr2:173557600-173558600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr2:173557600-173558600	Enhancers	Stomach Mucosa	stomach
34	chr2:173557600-173558600	Flanking Active TSS	A549	lung
35	chr2:173557600-173558600	Flanking Active TSS	Hela-S3	cervix
36	chr2:173557600-173558600	Enhancers	HSMMtube	muscle
37	chr2:173557600-173559000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
38	chr2:173557800-173558400	Enhancers	Primary hematopoietic stem cells	blood
39	chr2:173557800-173558400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
40	chr2:173557800-173558600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
41	chr2:173557800-173558600	Enhancers	Fetal Thymus	thymus
42	chr2:173557800-173558800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr2:173557800-173558800	Enhancers	Placenta	Placenta
44	chr2:173557800-173559000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
45	chr2:173557800-173559000	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr2:173557800-173559000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
47	chr2:173558000-173558400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr2:173558000-173558400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
49	chr2:173558000-173558400	Flanking Active TSS	NHEK	skin
50	chr2:173558000-173558800	Enhancers	Placenta Amnion	Placenta Amnion

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