Variant report

Variant	rs10930452
Chromosome Location	chr2:171897442-171897443
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:171896308..171898201-chr2:171899378..171901872,2	MCF-7	breast:
2	chr2:171893514..171896240-chr2:171897106..171902330,7	K562	blood:
3	chr2:171896348..171898007-chr2:171899729..171902396,2	K562	blood:
4	chr2:171895455..171897918-chr2:172334255..172336331,2	K562	blood:

Variant related genes	Relation type
ENSG00000115827	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10168109	1.00[EUR][1000 genomes]
rs10173304	1.00[EUR][1000 genomes]
rs10174275	1.00[EUR][1000 genomes]
rs10204442	1.00[EUR][1000 genomes]
rs10754976	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs10803856	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12621215	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13382924	1.00[EUR][1000 genomes]
rs13385649	1.00[EUR][1000 genomes]
rs13395368	1.00[EUR][1000 genomes]
rs13408916	1.00[EUR][1000 genomes]
rs13415374	1.00[EUR][1000 genomes]
rs13417630	1.00[EUR][1000 genomes]
rs13418838	1.00[EUR][1000 genomes]
rs13422667	1.00[EUR][1000 genomes]
rs13426912	1.00[EUR][1000 genomes]
rs13428121	1.00[EUR][1000 genomes]
rs1863773	1.00[EUR][1000 genomes]
rs2033161	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2052809	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2059722	1.00[EUR][1000 genomes]
rs2217151	1.00[EUR][1000 genomes]
rs2217184	1.00[EUR][1000 genomes]
rs2247657	1.00[EUR][1000 genomes]
rs2356372	1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2555919	1.00[EUR][1000 genomes]
rs2555920	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs2555921	1.00[EUR][1000 genomes]
rs2555923	1.00[EUR][1000 genomes]
rs2555924	1.00[EUR][1000 genomes]
rs2555925	1.00[EUR][1000 genomes]
rs2555927	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs2557800	1.00[EUR][1000 genomes]
rs2557801	1.00[EUR][1000 genomes]
rs2557805	1.00[EUR][1000 genomes]
rs2676129	1.00[EUR][1000 genomes]
rs2676134	1.00[EUR][1000 genomes]
rs2676135	1.00[EUR][1000 genomes]
rs2676146	1.00[EUR][1000 genomes]
rs2676148	1.00[EUR][1000 genomes]
rs2723237	1.00[EUR][1000 genomes]
rs2723244	1.00[EUR][1000 genomes]
rs2723246	1.00[EUR][1000 genomes]
rs2723247	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs28499279	1.00[EUR][1000 genomes]
rs28641775	1.00[EUR][1000 genomes]
rs4027753	1.00[EUR][1000 genomes]
rs4668366	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4668367	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6433274	1.00[EUR][1000 genomes]
rs6433279	1.00[EUR][1000 genomes]
rs6433280	1.00[EUR][1000 genomes]
rs6721080	1.00[EUR][1000 genomes]
rs6722314	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6732108	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs6735986	1.00[EUR][1000 genomes]
rs6749884	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6751462	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6761606	1.00[EUR][1000 genomes]
rs73027301	1.00[EUR][1000 genomes]
rs7560590	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7582081	1.00[EUR][1000 genomes]
rs7584937	1.00[ASW][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs964171	1.00[GIH][hapmap];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431801	chr2:171721493-171966493	ZNF genes & repeats Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv834456	chr2:171874210-172014659	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:171830600-171902800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:171831400-171916200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:171841600-171940000	Weak transcription	Right Ventricle	heart
4	chr2:171842600-171912000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr2:171846000-171898000	Weak transcription	Psoas Muscle	Psoas
6	chr2:171846200-171901000	Weak transcription	Fetal Brain Male	brain
7	chr2:171847400-171902600	Weak transcription	Brain Angular Gyrus	brain
8	chr2:171853200-171898800	Weak transcription	Aorta	Aorta
9	chr2:171862600-171918400	Weak transcription	Brain Germinal Matrix	brain
10	chr2:171862800-171899000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr2:171862800-171931200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:171865800-171905000	Weak transcription	Fetal Heart	heart
13	chr2:171867800-171898600	Weak transcription	Rectal Smooth Muscle	rectum
14	chr2:171867800-171898800	Weak transcription	Colonic Mucosa	Colon
15	chr2:171867800-171916200	Weak transcription	Gastric	stomach
16	chr2:171871200-171897800	Weak transcription	Pancreas	Pancrea
17	chr2:171871400-171898000	Weak transcription	Lung	lung
18	chr2:171874800-171916200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr2:171878000-171943200	Weak transcription	Small Intestine	intestine
20	chr2:171878800-171940000	Weak transcription	Stomach Mucosa	stomach
21	chr2:171881800-171899000	Strong transcription	Dnd41	blood
22	chr2:171882400-171900800	Weak transcription	NH-A	brain
23	chr2:171882600-171902200	Strong transcription	HUES64 Cell Line	embryonic stem cell
24	chr2:171883600-171916200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr2:171884200-171913000	Strong transcription	Liver	Liver
26	chr2:171885600-171902800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr2:171886000-171902200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr2:171887400-171903200	Strong transcription	Primary hematopoietic stem cells	blood
29	chr2:171888200-171913800	Strong transcription	HepG2	liver
30	chr2:171889000-171897800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr2:171890400-171901400	Strong transcription	HUES48 Cell Line	embryonic stem cell
32	chr2:171890400-171912800	Strong transcription	Placenta	Placenta
33	chr2:171890400-171917600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr2:171890600-171902200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr2:171891000-171913400	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr2:171891400-171911600	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr2:171892000-171904000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr2:171892000-171906600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr2:171892400-171899000	Weak transcription	Fetal Kidney	kidney
40	chr2:171892400-171911800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr2:171892400-171943400	Weak transcription	Spleen	Spleen
42	chr2:171892600-171898000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr2:171892600-171899000	Strong transcription	Primary B cells from peripheral blood	blood
44	chr2:171892600-171899000	Weak transcription	HUVEC	blood vessel
45	chr2:171892600-171905000	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr2:171892600-171905000	Weak transcription	Brain Substantia Nigra	brain
47	chr2:171892600-171916200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr2:171892600-171918200	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr2:171892800-171903200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr2:171892800-171907600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links