Variant report

Variant	rs13096536
Chromosome Location	chr3:17092898-17092899
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12054464	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12233493	0.87[ASN][1000 genomes]
rs12233538	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12233541	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13066204	0.86[EUR][1000 genomes]
rs13073804	1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13083189	1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13085309	0.85[EUR][1000 genomes]
rs1550518	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17042904	1.00[CHB][hapmap]
rs17200543	1.00[JPT][hapmap]
rs17272740	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17272810	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17272817	1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17272831	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28498854	0.95[EUR][1000 genomes]
rs28932173	0.83[ASN][1000 genomes]
rs34053933	0.86[EUR][1000 genomes]
rs34437014	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34824028	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35100600	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35307172	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3935970	1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4290789	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55942882	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56060350	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58855245	0.86[EUR][1000 genomes]
rs59256854	0.86[EUR][1000 genomes]
rs62246031	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62247182	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6789069	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6796868	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs71627166	0.86[EUR][1000 genomes]
rs7616589	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7652293	1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7652874	0.84[EUR][1000 genomes]
rs9815788	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9834723	1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9835432	0.85[EUR][1000 genomes]
rs9845137	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9858664	0.81[ASN][1000 genomes]
rs9876768	0.94[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13096536	PLCL2	cis	Whole Blood	GTEx

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17070000-17093600	Weak transcription	Fetal Lung	lung
2	chr3:17073000-17093000	Weak transcription	Spleen	Spleen
3	chr3:17077400-17094600	Weak transcription	Psoas Muscle	Psoas
4	chr3:17081200-17111400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:17082600-17097000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:17083000-17096600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:17083000-17097200	Weak transcription	NH-A	brain
8	chr3:17083000-17109600	Weak transcription	Fetal Intestine Large	intestine
9	chr3:17083200-17111600	Weak transcription	Stomach Mucosa	stomach
10	chr3:17084000-17094800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr3:17085000-17095800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr3:17085800-17094000	Weak transcription	Aorta	Aorta
13	chr3:17085800-17112200	Weak transcription	Gastric	stomach
14	chr3:17086000-17094600	Weak transcription	Brain Germinal Matrix	brain
15	chr3:17086000-17096000	Weak transcription	Right Ventricle	heart
16	chr3:17086000-17096400	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:17087400-17095200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr3:17087600-17094600	Weak transcription	Fetal Stomach	stomach
19	chr3:17088600-17094000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:17089000-17094600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr3:17089400-17109000	Weak transcription	Dnd41	blood
22	chr3:17089400-17135000	Weak transcription	Pancreas	Pancrea
23	chr3:17089600-17097000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:17089600-17111000	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr3:17089800-17094000	Weak transcription	Ovary	ovary
26	chr3:17089800-17110400	Weak transcription	Fetal Thymus	thymus
27	chr3:17089800-17112200	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr3:17089800-17116000	Weak transcription	Thymus	Thymus
29	chr3:17090000-17095800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr3:17090400-17094600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr3:17090400-17094800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr3:17090400-17096000	Weak transcription	Fetal Heart	heart
33	chr3:17090400-17096400	Weak transcription	Osteobl	bone
34	chr3:17090400-17097000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr3:17090400-17097000	Weak transcription	Left Ventricle	heart
36	chr3:17090400-17110400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr3:17090600-17093000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr3:17090600-17093000	Weak transcription	A549	lung
39	chr3:17090600-17093400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:17090600-17093800	Weak transcription	Primary B cells from peripheral blood	blood
41	chr3:17090600-17094000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr3:17090600-17094000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:17090600-17096800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:17090600-17110400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr3:17090800-17094600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr3:17090800-17094600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr3:17091000-17094600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr3:17091200-17095000	Weak transcription	Primary T helper cells PMA-I stimulated	--
49	chr3:17091400-17095800	Enhancers	Primary monocytes fromperipheralblood	blood
50	chr3:17091600-17093200	Weak transcription	Primary T helper cells fromperipheralblood	blood

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