Variant report

Variant	rs12487288
Chromosome Location	chr3:17083048-17083049
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17077235..17080133-chr3:17081662..17084090,3	K562	blood:
2	chr3:17077235..17079124-chr3:17082196..17084090,2	K562	blood:

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10865746	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11128815	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11717329	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11926952	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12233492	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12497667	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12497953	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13058764	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13059347	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13071645	0.91[CEU][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13080108	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13080782	0.83[EUR][1000 genomes]
rs13317381	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1441035	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17272796	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1806555	0.91[CEU][hapmap];0.82[CHB][hapmap];0.86[YRI][hapmap];0.84[EUR][1000 genomes]
rs1806556	0.92[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1837697	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2014490	0.85[JPT][hapmap]
rs35319117	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3906814	0.86[CEU][hapmap];0.84[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3924971	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4234539	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4295151	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4334629	0.96[CEU][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap]
rs4353792	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4423750	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4461404	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4472039	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4535211	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4561816	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4596131	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4602367	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4618210	0.83[JPT][hapmap]
rs4684308	0.81[JPT][hapmap]
rs4685404	0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4685405	0.85[JPT][hapmap]
rs4685408	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4685409	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4685415	0.82[AMR][1000 genomes]
rs4685418	0.91[CEU][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4685420	1.00[CEU][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4685421	1.00[CEU][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4685422	0.82[YRI][hapmap]
rs4685426	0.90[JPT][hapmap]
rs4685427	0.85[JPT][hapmap]
rs55748719	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6442660	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs6762816	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6776032	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6780191	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6781611	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6797029	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6805534	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6807144	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6809087	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7610811	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.82[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7611127	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7612044	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7617672	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7629171	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7645335	0.92[CEU][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7653027	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9810017	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9824172	0.85[JPT][hapmap]
rs9830460	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9841259	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9844888	0.82[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs9854760	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9862613	0.95[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9879150	0.94[JPT][hapmap]
rs9880307	0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9881521	0.86[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9883633	0.89[JPT][hapmap]
rs9985404	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12487288	PLCL2	cis	Whole Blood	GTEx

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17053800-17086800	Weak transcription	Fetal Stomach	stomach
2	chr3:17055400-17088800	Weak transcription	Thymus	Thymus
3	chr3:17055800-17087800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr3:17060000-17088600	Weak transcription	Pancreas	Pancrea
5	chr3:17069400-17085600	Weak transcription	Aorta	Aorta
6	chr3:17070000-17093600	Weak transcription	Fetal Lung	lung
7	chr3:17072800-17085600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr3:17073000-17088800	Weak transcription	Right Atrium	heart
9	chr3:17073000-17093000	Weak transcription	Spleen	Spleen
10	chr3:17073200-17085200	Weak transcription	Placenta	Placenta
11	chr3:17073200-17085400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:17074000-17084400	Weak transcription	Liver	Liver
13	chr3:17076400-17085600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:17076600-17086800	Weak transcription	Dnd41	blood
15	chr3:17076800-17085200	Weak transcription	Primary B cells from peripheral blood	blood
16	chr3:17077000-17086800	Weak transcription	Fetal Thymus	thymus
17	chr3:17077200-17083800	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr3:17077400-17084200	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:17077400-17085600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr3:17077400-17094600	Weak transcription	Psoas Muscle	Psoas
21	chr3:17077800-17084000	Weak transcription	Primary hematopoietic stem cells	blood
22	chr3:17077800-17086800	Weak transcription	Ovary	ovary
23	chr3:17079600-17083200	Enhancers	Stomach Mucosa	stomach
24	chr3:17079800-17090000	Strong transcription	Primary B cells from cord blood	blood
25	chr3:17080200-17083200	Enhancers	Hela-S3	cervix
26	chr3:17080600-17083200	Enhancers	Osteobl	bone
27	chr3:17080600-17083400	Enhancers	Muscle Satellite Cultured Cells	--
28	chr3:17080800-17090200	Weak transcription	Fetal Muscle Leg	muscle
29	chr3:17081000-17083400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr3:17081000-17084200	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr3:17081000-17084600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr3:17081000-17085600	Weak transcription	Esophagus	oesophagus
33	chr3:17081000-17085600	Weak transcription	Gastric	stomach
34	chr3:17081000-17088800	Weak transcription	Lung	lung
35	chr3:17081200-17084000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr3:17081200-17084400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr3:17081200-17087200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr3:17081200-17111400	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr3:17081400-17084000	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr3:17081400-17084000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:17081400-17084200	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr3:17081400-17085400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr3:17081400-17085400	Weak transcription	Adipose Nuclei	Adipose
44	chr3:17081400-17087400	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr3:17081600-17087200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr3:17081600-17090000	Strong transcription	Primary T cells from cord blood	blood
47	chr3:17081600-17090200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr3:17081800-17084000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr3:17081800-17090000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr3:17082200-17084200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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