Variant report

Variant	rs10187564
Chromosome Location	chr2:173308615-173308616
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	chr2:173307073..173308885-chr2:173311042..173312605,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10207640	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10207654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10930559	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12052253	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12052385	1.00[EUR][1000 genomes]
rs12053442	0.85[EUR][1000 genomes]
rs12613307	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12615584	0.85[EUR][1000 genomes]
rs12615596	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12621278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12622724	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13410475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13414928	0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1574256	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1574259	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16860397	1.00[EUR][1000 genomes]
rs16860419	1.00[EUR][1000 genomes]
rs16860426	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16860438	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16860478	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16860515	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2293645	0.85[EUR][1000 genomes]
rs2293648	0.85[AMR][1000 genomes]
rs28485589	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3762618	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4405725	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55867175	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56882727	0.85[EUR][1000 genomes]
rs56892098	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57244773	0.85[EUR][1000 genomes]
rs57404607	0.85[EUR][1000 genomes]
rs57587465	0.85[EUR][1000 genomes]
rs57878744	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59374567	0.85[EUR][1000 genomes]
rs59454075	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59970483	0.85[EUR][1000 genomes]
rs60096331	0.85[EUR][1000 genomes]
rs6730284	0.85[EUR][1000 genomes]
rs6741759	0.85[EUR][1000 genomes]
rs7607084	0.93[AFR][1000 genomes]
rs9636257	0.85[AMR][1000 genomes];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	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

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173294800-173308800	Enhancers	Stomach Mucosa	stomach
2	chr2:173303200-173309600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr2:173304200-173311400	Weak transcription	Liver	Liver
4	chr2:173304600-173308800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:173304600-173310400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr2:173304800-173308800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr2:173305000-173310400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr2:173305000-173316800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr2:173305400-173309000	Enhancers	Fetal Muscle Leg	muscle
10	chr2:173305800-173308800	Enhancers	Fetal Heart	heart
11	chr2:173306200-173310400	Weak transcription	Fetal Lung	lung
12	chr2:173306200-173311200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr2:173306800-173309800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr2:173306800-173311400	Weak transcription	Primary hematopoietic stem cells	blood
15	chr2:173306800-173316400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr2:173307000-173309600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr2:173307000-173309600	Weak transcription	Brain Germinal Matrix	brain
18	chr2:173307000-173310600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr2:173307200-173318600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr2:173307400-173310400	Weak transcription	Brain Substantia Nigra	brain
21	chr2:173307400-173310400	Weak transcription	Gastric	stomach
22	chr2:173307400-173310400	Weak transcription	Spleen	Spleen
23	chr2:173307400-173310400	Weak transcription	NHLF	lung
24	chr2:173307400-173310600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr2:173307400-173312800	Weak transcription	Fetal Kidney	kidney
26	chr2:173307400-173313600	Weak transcription	Placenta	Placenta
27	chr2:173307400-173322400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr2:173307600-173308800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr2:173307600-173309000	Enhancers	A549	lung
30	chr2:173307600-173309200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr2:173307600-173310200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr2:173307600-173310400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr2:173307600-173310400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr2:173307600-173310400	Weak transcription	Adipose Nuclei	Adipose
35	chr2:173307600-173310400	Weak transcription	Fetal Thymus	thymus
36	chr2:173307600-173310400	Weak transcription	Left Ventricle	heart
37	chr2:173307600-173310400	Weak transcription	Lung	lung
38	chr2:173307600-173310400	Weak transcription	Pancreas	Pancrea
39	chr2:173307600-173310400	Weak transcription	Right Atrium	heart
40	chr2:173307600-173310400	Weak transcription	HUVEC	blood vessel
41	chr2:173307600-173310600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr2:173307600-173310600	Genic enhancers	NHEK	skin
43	chr2:173307600-173312400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr2:173307600-173312400	Weak transcription	Colonic Mucosa	Colon
45	chr2:173307600-173312600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr2:173307600-173312600	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr2:173307600-173312600	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr2:173307600-173313400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr2:173307600-173313600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr2:173307600-173313800	Weak transcription	Right Ventricle	heart

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