Variant report

Variant	rs11510435
Chromosome Location	chr3:52710406-52710407
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs12107484	1.00[EUR][1000 genomes]
rs17052357	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17052404	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1963813	0.96[AFR][1000 genomes]
rs2028220	0.81[AFR][1000 genomes]
rs34173244	1.00[EUR][1000 genomes]
rs4532127	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56134416	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56156188	1.00[EUR][1000 genomes]
rs56276589	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56665533	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57008939	1.00[EUR][1000 genomes]
rs57298447	1.00[EUR][1000 genomes]
rs57757646	1.00[EUR][1000 genomes]
rs57789542	1.00[EUR][1000 genomes]
rs57869735	1.00[EUR][1000 genomes]
rs57946083	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58409398	1.00[EUR][1000 genomes]
rs58528592	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58564212	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59638016	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59869286	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60040519	1.00[EUR][1000 genomes]
rs60058353	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60256157	1.00[EUR][1000 genomes]
rs60311166	1.00[EUR][1000 genomes]
rs60770874	0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60830326	1.00[EUR][1000 genomes]
rs61220667	1.00[EUR][1000 genomes]
rs61538294	1.00[EUR][1000 genomes]
rs6445536	1.00[EUR][1000 genomes]
rs6762788	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6769720	1.00[EUR][1000 genomes]
rs6780005	0.87[EUR][1000 genomes]
rs6780397	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6803492	0.88[AFR][1000 genomes]
rs72947583	0.81[AFR][1000 genomes]
rs72947584	0.82[AFR][1000 genomes]
rs72950424	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72950432	1.00[EUR][1000 genomes]
rs72950437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72960212	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72960237	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72960240	1.00[EUR][1000 genomes]
rs72960260	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72960274	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72960281	1.00[EUR][1000 genomes]
rs72960285	1.00[EUR][1000 genomes]
rs72965177	1.00[EUR][1000 genomes]
rs72965181	1.00[EUR][1000 genomes]
rs73839126	1.00[EUR][1000 genomes]
rs73839129	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7645785	1.00[EUR][1000 genomes]
rs764636	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7647992	1.00[EUR][1000 genomes]
rs934839	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];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	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
2	esv2442255	chr3:52709458-52711078	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:127 , 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	chr3:52592200-52719200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:52637200-52715800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:52642600-52711200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr3:52650000-52712200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:52655200-52716400	Strong transcription	Fetal Thymus	thymus
7	chr3:52665400-52719200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr3:52670800-52715400	Strong transcription	Dnd41	blood
9	chr3:52681200-52716200	Strong transcription	Fetal Muscle Trunk	muscle
10	chr3:52688000-52714800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:52696000-52712000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:52696200-52711800	Weak transcription	Aorta	Aorta
13	chr3:52698800-52714400	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:52699400-52715600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr3:52700000-52710800	Weak transcription	Small Intestine	intestine
16	chr3:52700600-52715000	Strong transcription	Primary B cells from cord blood	blood
17	chr3:52701800-52715600	Strong transcription	Brain Germinal Matrix	brain
18	chr3:52702000-52714400	Strong transcription	Fetal Lung	lung
19	chr3:52703600-52712200	Strong transcription	Liver	Liver
20	chr3:52703600-52716000	Strong transcription	Fetal Brain Female	brain
21	chr3:52703800-52713400	Strong transcription	Primary T cells from cord blood	blood
22	chr3:52703800-52715800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr3:52704000-52712800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr3:52704000-52714200	Strong transcription	Thymus	Thymus
25	chr3:52704000-52714600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr3:52704000-52716000	Strong transcription	Fetal Muscle Leg	muscle
27	chr3:52704400-52714000	Strong transcription	Fetal Intestine Large	intestine
28	chr3:52704600-52714200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr3:52704800-52711000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr3:52704800-52715600	Strong transcription	Primary B cells from peripheral blood	blood
31	chr3:52705000-52710600	Weak transcription	Spleen	Spleen
32	chr3:52705000-52713000	Weak transcription	Right Atrium	heart
33	chr3:52705000-52714000	Strong transcription	Brain Anterior Caudate	brain
34	chr3:52705000-52714400	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr3:52705200-52715200	Strong transcription	Duodenum Mucosa	Duodenum
36	chr3:52705600-52714600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr3:52705600-52715000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr3:52705600-52715200	Strong transcription	Placenta	Placenta
39	chr3:52705600-52715800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr3:52705800-52715600	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr3:52706000-52710600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr3:52706000-52714200	Strong transcription	H1 Cell Line	embryonic stem cell
43	chr3:52706000-52714400	Strong transcription	Primary neutrophils fromperipheralblood	blood
44	chr3:52706000-52715000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr3:52706000-52716200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr3:52706000-52716200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr3:52706200-52713000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr3:52706200-52713000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr3:52706200-52714800	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr3:52706200-52715800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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