Variant report

Variant	rs4234635
Chromosome Location	chr3:52649040-52649041
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	chr3:52566165..52568026-chr3:52648479..52651083,2	K562	blood:

Variant related genes	Relation type
ENSG00000168268	Chromatin interaction

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10049313	1.00[EUR][1000 genomes]
rs1052728	1.00[EUR][1000 genomes]
rs17052326	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];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]
rs2336158	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[TSI][hapmap];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[TSI][hapmap];1.00[EUR][1000 genomes]
rs2710336	1.00[TSI][hapmap];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]
rs34296002	1.00[AMR][1000 genomes]
rs3774361	1.00[EUR][1000 genomes]
rs4234636	1.00[EUR][1000 genomes]
rs4687555	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]
rs56866386	1.00[EUR][1000 genomes]
rs6445537	1.00[EUR][1000 genomes]
rs6445540	1.00[EUR][1000 genomes]
rs6766038	1.00[EUR][1000 genomes]
rs6774869	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	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]
rs7629528	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]

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	chr3:52634800-52654400	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr3:52634800-52654400	Strong transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:52634800-52686000	Strong transcription	Duodenum Mucosa	Duodenum
7	chr3:52635600-52654200	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr3:52635600-52655200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:52635800-52654400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:52635800-52654600	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr3:52635800-52654600	Strong transcription	Adipose Nuclei	Adipose
12	chr3:52635800-52657800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:52636000-52651000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:52636000-52653200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr3:52636000-52653200	Strong transcription	Fetal Intestine Large	intestine
16	chr3:52636000-52654400	Strong transcription	Fetal Thymus	thymus
17	chr3:52636000-52655200	Strong transcription	Fetal Muscle Trunk	muscle
18	chr3:52636000-52703800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr3:52636000-52704000	Strong transcription	Placenta	Placenta
20	chr3:52636200-52653600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr3:52636200-52703200	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr3:52636400-52654600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:52636600-52649200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr3:52636600-52654800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr3:52636600-52669200	Strong transcription	Primary B cells from peripheral blood	blood
26	chr3:52636600-52673600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:52636600-52677400	Weak transcription	Pancreas	Pancrea
28	chr3:52636800-52652800	Strong transcription	Fetal Brain Female	brain
29	chr3:52636800-52654600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr3:52636800-52654800	Strong transcription	Fetal Muscle Leg	muscle
31	chr3:52636800-52662800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr3:52636800-52703600	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr3:52637200-52715800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:52637400-52654200	Strong transcription	Primary T cells from cord blood	blood
35	chr3:52637800-52654200	Strong transcription	Thymus	Thymus
36	chr3:52638800-52658400	Weak transcription	Esophagus	oesophagus
37	chr3:52639600-52670000	Strong transcription	Dnd41	blood
38	chr3:52640200-52655800	Weak transcription	Lung	lung
39	chr3:52640600-52663200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr3:52640800-52652600	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr3:52640800-52684600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr3:52641000-52649400	Weak transcription	Rectal Smooth Muscle	rectum
43	chr3:52641000-52652200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr3:52641000-52670800	Weak transcription	Stomach Mucosa	stomach
45	chr3:52641200-52654600	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr3:52641400-52654400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr3:52641600-52651400	Strong transcription	Fetal Stomach	stomach
48	chr3:52641600-52654600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr3:52641600-52664800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr3:52641800-52652600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links