Variant report

Variant	rs4234636
Chromosome Location	chr3:52686087-52686088
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:52685927..52688754-chr3:52718767..52720699,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163938	Chromatin interaction
ENSG00000163939	Chromatin interaction

Extended variants
information (count: 114 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10049313	1.00[EUR][1000 genomes]
rs1052728	1.00[EUR][1000 genomes]
rs13066997	1.00[EUR][1000 genomes]
rs17052326	1.00[EUR][1000 genomes]
rs17052421	1.00[EUR][1000 genomes]
rs1986738	1.00[EUR][1000 genomes]
rs1986739	1.00[EUR][1000 genomes]
rs2001733	1.00[EUR][1000 genomes]
rs2001734	1.00[EUR][1000 genomes]
rs2245536	1.00[EUR][1000 genomes]
rs2246888	1.00[EUR][1000 genomes]
rs2246889	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]
rs2336158	1.00[EUR][1000 genomes]
rs2336159	1.00[EUR][1000 genomes]
rs2336556	1.00[EUR][1000 genomes]
rs2336557	1.00[EUR][1000 genomes]
rs2336559	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[EUR][1000 genomes]
rs2577829	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2577830	1.00[EUR][1000 genomes]
rs2590840	1.00[EUR][1000 genomes]
rs2590841	1.00[EUR][1000 genomes]
rs2590849	0.81[AFR][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]
rs2878635	1.00[EUR][1000 genomes]
rs2878636	1.00[EUR][1000 genomes]
rs3774361	1.00[EUR][1000 genomes]
rs4234635	1.00[EUR][1000 genomes]
rs4234637	1.00[EUR][1000 genomes]
rs4687555	1.00[EUR][1000 genomes]
rs4687557	1.00[EUR][1000 genomes]
rs4687659	1.00[EUR][1000 genomes]
rs4687661	1.00[EUR][1000 genomes]
rs4687665	1.00[EUR][1000 genomes]
rs4687666	1.00[EUR][1000 genomes]
rs4687667	1.00[EUR][1000 genomes]
rs4687668	1.00[EUR][1000 genomes]
rs4687669	1.00[EUR][1000 genomes]
rs4687670	1.00[EUR][1000 genomes]
rs4687671	1.00[EUR][1000 genomes]
rs4687674	1.00[EUR][1000 genomes]
rs4687675	1.00[EUR][1000 genomes]
rs56866386	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59094265	1.00[EUR][1000 genomes]
rs61274383	1.00[EUR][1000 genomes]
rs6445537	1.00[EUR][1000 genomes]
rs6445540	1.00[EUR][1000 genomes]
rs6445542	1.00[EUR][1000 genomes]
rs6766038	1.00[EUR][1000 genomes]
rs6774869	1.00[EUR][1000 genomes]
rs6776862	1.00[EUR][1000 genomes]
rs6776990	1.00[EUR][1000 genomes]
rs6787916	1.00[EUR][1000 genomes]
rs6794706	1.00[EUR][1000 genomes]
rs72947525	1.00[EUR][1000 genomes]
rs72947530	1.00[EUR][1000 genomes]
rs72947531	1.00[EUR][1000 genomes]
rs72947532	1.00[EUR][1000 genomes]
rs72947537	1.00[EUR][1000 genomes]
rs72947557	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72959348	1.00[EUR][1000 genomes]
rs72965274	1.00[EUR][1000 genomes]
rs7623667	1.00[EUR][1000 genomes]
rs7629528	1.00[EUR][1000 genomes]
rs7637212	1.00[EUR][1000 genomes]
rs7647534	1.00[EUR][1000 genomes]
rs7649515	1.00[EUR][1000 genomes]
rs7650966	1.00[EUR][1000 genomes]
rs7652476	1.00[EUR][1000 genomes]
rs9681089	1.00[EUR][1000 genomes]
rs9682449	1.00[EUR][1000 genomes]
rs9682819	1.00[EUR][1000 genomes]
rs9877711	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:126 , 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	chr3:52636000-52703800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:52636000-52704000	Strong transcription	Placenta	Placenta
6	chr3:52636200-52703200	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr3:52636800-52703600	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr3:52637200-52715800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:52642600-52711200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:52643400-52691200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:52650000-52712200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr3:52655200-52716400	Strong transcription	Fetal Thymus	thymus
13	chr3:52655800-52697600	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr3:52655800-52704000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:52656600-52704600	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:52657000-52697200	Strong transcription	Liver	Liver
17	chr3:52657000-52697600	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr3:52658000-52702800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr3:52660800-52704800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr3:52664600-52701600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:52665400-52719200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr3:52666200-52702400	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr3:52670400-52704600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr3:52670800-52686200	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr3:52670800-52715400	Strong transcription	Dnd41	blood
26	chr3:52671000-52697600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr3:52671000-52697600	Strong transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:52671000-52697800	Strong transcription	Primary B cells from peripheral blood	blood
29	chr3:52671000-52697800	Strong transcription	Primary T helper cells PMA-I stimulated	--
30	chr3:52671000-52700800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr3:52671000-52701000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:52671200-52698000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr3:52671200-52698000	Strong transcription	Duodenum Smooth Muscle	Duodenum
34	chr3:52672600-52686200	Strong transcription	Rectal Mucosa Donor 29	rectum
35	chr3:52673200-52697600	Strong transcription	Primary B cells from cord blood	blood
36	chr3:52673200-52702600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:52673600-52697800	Strong transcription	HUVEC	blood vessel
38	chr3:52677600-52686600	Weak transcription	Gastric	stomach
39	chr3:52677800-52688000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr3:52680600-52697600	Strong transcription	Stomach Smooth Muscle	stomach
41	chr3:52680600-52697800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr3:52680800-52697600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr3:52680800-52697600	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr3:52681000-52702000	Strong transcription	Primary T cells from cord blood	blood
45	chr3:52681200-52687200	Strong transcription	Sigmoid Colon	Sigmoid Colon
46	chr3:52681200-52691200	Strong transcription	Fetal Brain Female	brain
47	chr3:52681200-52696200	Strong transcription	Lung	lung
48	chr3:52681200-52696400	Strong transcription	H1 Cell Line	embryonic stem cell
49	chr3:52681200-52702400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr3:52681200-52702400	Strong transcription	Fetal Intestine Large	intestine

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