Variant report

Variant	rs17052326
Chromosome Location	chr3:52639964-52639965
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:52638867..52640525-chr3:52644205..52645878,2	K562	blood:
2	chr3:52569398..52572124-chr3:52639964..52643455,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168273	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10049313	1.00[EUR][1000 genomes]
rs1052728	1.00[EUR][1000 genomes]
rs17052421	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2245536	1.00[EUR][1000 genomes]
rs2256728	1.00[EUR][1000 genomes]
rs2256734	1.00[EUR][1000 genomes]
rs2276814	1.00[EUR][1000 genomes]
rs2276819	1.00[EUR][1000 genomes]
rs2276821	1.00[EUR][1000 genomes]
rs2336155	1.00[EUR][1000 genomes]
rs2336157	1.00[EUR][1000 genomes]
rs2535615	1.00[EUR][1000 genomes]
rs2535616	1.00[EUR][1000 genomes]
rs2535618	1.00[EUR][1000 genomes]
rs2535619	1.00[EUR][1000 genomes]
rs2535620	1.00[EUR][1000 genomes]
rs2535621	1.00[EUR][1000 genomes]
rs2535622	1.00[EUR][1000 genomes]
rs2535623	1.00[EUR][1000 genomes]
rs2535624	1.00[EUR][1000 genomes]
rs2535626	1.00[EUR][1000 genomes]
rs2535628	1.00[EUR][1000 genomes]
rs2535631	1.00[EUR][1000 genomes]
rs2535632	1.00[EUR][1000 genomes]
rs2535636	1.00[EUR][1000 genomes]
rs2535637	1.00[EUR][1000 genomes]
rs2535638	1.00[EUR][1000 genomes]
rs2535639	1.00[EUR][1000 genomes]
rs2535641	1.00[EUR][1000 genomes]
rs2535642	1.00[EUR][1000 genomes]
rs2535645	1.00[EUR][1000 genomes]
rs2535646	1.00[EUR][1000 genomes]
rs2577828	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2577829	1.00[EUR][1000 genomes]
rs2577830	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2577838	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2590840	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2590841	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2710318	1.00[EUR][1000 genomes]
rs2710319	1.00[EUR][1000 genomes]
rs2710320	1.00[EUR][1000 genomes]
rs2710321	1.00[EUR][1000 genomes]
rs2710324	1.00[EUR][1000 genomes]
rs2710325	1.00[EUR][1000 genomes]
rs2710328	1.00[EUR][1000 genomes]
rs2710329	1.00[EUR][1000 genomes]
rs2710336	1.00[EUR][1000 genomes]
rs2710343	1.00[EUR][1000 genomes]
rs2710344	1.00[EUR][1000 genomes]
rs2878633	1.00[EUR][1000 genomes]
rs2878634	1.00[EUR][1000 genomes]
rs34296002	1.00[AMR][1000 genomes]
rs3774361	1.00[EUR][1000 genomes]
rs4234635	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4234636	1.00[EUR][1000 genomes]
rs4687659	1.00[EUR][1000 genomes]
rs4687661	1.00[EUR][1000 genomes]
rs56866386	1.00[EUR][1000 genomes]
rs6766038	1.00[EUR][1000 genomes]
rs6774869	1.00[EUR][1000 genomes]
rs6787916	1.00[EUR][1000 genomes]
rs6794706	1.00[EUR][1000 genomes]
rs72947525	1.00[EUR][1000 genomes]
rs72947530	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72947531	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72947532	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72947537	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72947557	1.00[EUR][1000 genomes]
rs72959348	1.00[EUR][1000 genomes]
rs72965274	1.00[EUR][1000 genomes]
rs7614424	1.00[YRI][hapmap]
rs7623667	1.00[EUR][1000 genomes]
rs7649515	1.00[EUR][1000 genomes]
rs7652476	1.00[EUR][1000 genomes]
rs9681089	1.00[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	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52587200-52719200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:52591000-52688000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:52592200-52719200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:52627800-52640600	Weak transcription	Fetal Heart	heart
5	chr3:52628600-52640200	Strong transcription	Muscle Satellite Cultured Cells	--
6	chr3:52631600-52640600	Weak transcription	Stomach Mucosa	stomach
7	chr3:52632200-52640400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr3:52633800-52640400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr3:52634200-52640800	Strong transcription	HUVEC	blood vessel
10	chr3:52634200-52647800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr3:52634600-52640600	Strong transcription	Left Ventricle	heart
12	chr3:52634800-52640800	Strong transcription	Duodenum Smooth Muscle	Duodenum
13	chr3:52634800-52654400	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr3:52634800-52654400	Strong transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:52634800-52686000	Strong transcription	Duodenum Mucosa	Duodenum
16	chr3:52635200-52641800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:52635200-52641800	Strong transcription	Primary T helper cells PMA-I stimulated	--
18	chr3:52635400-52640400	Strong transcription	Rectal Mucosa Donor 29	rectum
19	chr3:52635400-52649000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:52635600-52654200	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr3:52635600-52655200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:52635800-52654400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:52635800-52654600	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr3:52635800-52654600	Strong transcription	Adipose Nuclei	Adipose
25	chr3:52635800-52657800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr3:52636000-52640200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr3:52636000-52640800	Weak transcription	K562	blood
28	chr3:52636000-52641400	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr3:52636000-52643800	Strong transcription	Fetal Brain Male	brain
30	chr3:52636000-52646800	Strong transcription	Fetal Lung	lung
31	chr3:52636000-52651000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr3:52636000-52653200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr3:52636000-52653200	Strong transcription	Fetal Intestine Large	intestine
34	chr3:52636000-52654400	Strong transcription	Fetal Thymus	thymus
35	chr3:52636000-52655200	Strong transcription	Fetal Muscle Trunk	muscle
36	chr3:52636000-52703800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr3:52636000-52704000	Strong transcription	Placenta	Placenta
38	chr3:52636200-52643800	Strong transcription	HSMM	muscle
39	chr3:52636200-52653600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr3:52636200-52703200	Strong transcription	Primary monocytes fromperipheralblood	blood
41	chr3:52636400-52640800	Weak transcription	Brain Hippocampus Middle	brain
42	chr3:52636400-52641600	Weak transcription	Right Ventricle	heart
43	chr3:52636400-52643400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr3:52636400-52648000	Strong transcription	Cortex derived primary cultured neurospheres	brain
45	chr3:52636400-52654600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr3:52636600-52640800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr3:52636600-52640800	Weak transcription	Psoas Muscle	Psoas
48	chr3:52636600-52641200	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr3:52636600-52642000	Weak transcription	Aorta	Aorta
50	chr3:52636600-52643400	Weak transcription	Spleen	Spleen

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