Variant report

Variant	rs1806556
Chromosome Location	chr3:17016719-17016720
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10865746	0.88[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11128815	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11717329	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11926952	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12233492	1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12487288	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]
rs12497667	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12497953	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13058764	0.92[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13059347	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13071645	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13080108	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13080782	0.90[EUR][1000 genomes]
rs13317381	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1441035	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17272796	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1806555	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1837697	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2014490	0.84[JPT][hapmap]
rs35319117	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3906814	0.96[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3924971	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4234539	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4295151	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4334629	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs4353792	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4423750	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4461404	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4472039	0.82[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4535211	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4561816	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4596131	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4602367	0.85[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4618210	0.83[JPT][hapmap]
rs4685404	1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs4685405	0.84[JPT][hapmap]
rs4685408	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4685409	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4685415	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4685418	1.00[CEU][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4685420	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4685421	0.89[CEU][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4685426	0.85[JPT][hapmap]
rs55748719	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6442660	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs6762816	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6776032	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6780191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6781611	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6783752	0.82[ASN][1000 genomes]
rs6797029	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6805534	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6807144	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6809087	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7610811	0.90[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7611127	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7612044	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7617672	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7629171	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7629676	0.82[ASN][1000 genomes]
rs7645335	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7653027	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9810017	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9821630	0.80[JPT][hapmap]
rs9824172	0.84[JPT][hapmap]
rs9830460	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9841259	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9844888	0.95[CHB][hapmap];0.85[JPT][hapmap]
rs9854760	0.92[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9862613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9879150	0.94[JPT][hapmap]
rs9880307	0.81[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9881521	0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9883633	0.82[JPT][hapmap]
rs9985404	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1806556	PLCL2	cis	Whole Blood	GTEx

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17009200-17026600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr3:17014800-17019600	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr3:17014800-17033600	Weak transcription	Primary T cells from cord blood	blood
4	chr3:17014800-17038800	Weak transcription	Primary B cells from cord blood	blood
5	chr3:17015000-17017400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr3:17015000-17018000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr3:17015000-17019400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
8	chr3:17015400-17016800	Enhancers	Primary T cells fromperipheralblood	blood
9	chr3:17015400-17017400	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr3:17015400-17017600	Enhancers	Left Ventricle	heart
11	chr3:17015600-17017000	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr3:17015600-17017400	Enhancers	Right Atrium	heart
13	chr3:17015600-17017600	Enhancers	Psoas Muscle	Psoas
14	chr3:17015600-17019000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
15	chr3:17015800-17017800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:17016000-17020000	Weak transcription	Aorta	Aorta
17	chr3:17016000-17020600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:17016200-17017400	Enhancers	Right Ventricle	heart
19	chr3:17016200-17017600	Enhancers	Adipose Nuclei	Adipose
20	chr3:17016200-17019800	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:17016200-17027200	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr3:17016400-17016800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr3:17016400-17016800	Weak transcription	Ovary	ovary
24	chr3:17016400-17016800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:17016400-17017200	Enhancers	Osteobl	bone
26	chr3:17016400-17017600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
27	chr3:17016400-17032200	Weak transcription	Primary B cells from peripheral blood	blood
28	chr3:17016600-17017400	Weak transcription	Pancreas	Pancrea
29	chr3:17016600-17026600	Weak transcription	Fetal Heart	heart

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