Variant report

Variant	rs7612044
Chromosome Location	chr3:17050993-17050994
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17050058..17051814-chr3:17063376..17065120,2	MCF-7	breast:

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10865746	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11128813	0.87[CHB][hapmap]
rs11128815	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11717329	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11926952	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12108065	0.86[CHB][hapmap]
rs12233492	0.87[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12487288	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12492983	0.83[CHB][hapmap]
rs12497667	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12497953	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13058764	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13059347	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13071645	0.89[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13080108	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13080782	0.84[EUR][1000 genomes]
rs13317381	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1372071	0.83[CHB][hapmap]
rs1441035	0.89[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17042909	0.83[CHB][hapmap]
rs17272796	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1806555	0.88[CEU][hapmap];0.88[CHB][hapmap];0.84[EUR][1000 genomes]
rs1806556	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]
rs1837697	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2014490	0.85[JPT][hapmap]
rs34322012	0.87[CHB][hapmap]
rs35319117	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3796299	0.87[CHB][hapmap]
rs3906814	0.88[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3924971	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4131153	0.87[CHB][hapmap]
rs4234539	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4289331	0.87[CHB][hapmap]
rs4295151	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4334629	0.96[CEU][hapmap];0.90[JPT][hapmap]
rs4353792	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4383507	0.87[CHB][hapmap]
rs4402923	0.87[CHB][hapmap]
rs4423750	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4452313	0.82[CHB][hapmap]
rs4461404	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4472039	0.92[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4535211	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4561816	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4563393	0.89[YRI][hapmap]
rs4596131	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4602367	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4618210	0.81[CEU][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap]
rs4684305	0.87[CHB][hapmap]
rs4684306	0.87[CHB][hapmap]
rs4684307	0.87[CHB][hapmap]
rs4684308	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs4685404	0.83[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4685405	0.85[JPT][hapmap]
rs4685408	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4685409	0.89[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4685411	0.82[CHB][hapmap]
rs4685415	0.86[AMR][1000 genomes]
rs4685418	0.88[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4685420	1.00[CEU][hapmap];0.81[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4685421	1.00[CEU][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4685422	0.86[YRI][hapmap]
rs4685423	0.87[CHB][hapmap]
rs4685424	0.86[CHB][hapmap]
rs4685425	0.86[CHB][hapmap]
rs4685426	0.91[JPT][hapmap]
rs4685427	0.85[JPT][hapmap]
rs55748719	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6442660	0.88[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs6762816	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6776032	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6780191	0.89[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6781611	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6797029	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6805534	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6807144	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6809087	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7610811	1.00[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7611127	0.92[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7617672	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7617779	0.85[CHB][hapmap]
rs7629171	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7639882	0.83[CHB][hapmap]
rs7645335	0.89[CEU][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7648912	0.87[CHB][hapmap]
rs7653027	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7653834	0.87[CHB][hapmap]
rs964576	0.91[CHB][hapmap]
rs9810017	0.90[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9821630	0.87[CHB][hapmap]
rs9824172	0.85[JPT][hapmap]
rs9825009	0.87[CHB][hapmap]
rs9830460	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9841259	0.89[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs9844888	0.96[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs9853476	0.83[CHB][hapmap]
rs9854760	0.85[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9862613	0.96[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9879150	0.95[JPT][hapmap]
rs9880307	0.83[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9881521	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9883633	0.89[JPT][hapmap]
rs9985404	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7612044	PLCL2	cis	Whole Blood	GTEx

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17037000-17053200	Weak transcription	Fetal Intestine Small	intestine
2	chr3:17040200-17051000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr3:17040200-17051200	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr3:17041200-17051400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:17045000-17053800	Weak transcription	Thymus	Thymus
6	chr3:17045200-17052200	Weak transcription	Aorta	Aorta
7	chr3:17045400-17051200	Weak transcription	Placenta	Placenta
8	chr3:17046200-17053200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:17046600-17053000	Weak transcription	Brain Substantia Nigra	brain
10	chr3:17046800-17054200	Weak transcription	Psoas Muscle	Psoas
11	chr3:17046800-17054600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:17047000-17051800	Weak transcription	Fetal Brain Female	brain
13	chr3:17047000-17054200	Weak transcription	Brain Anterior Caudate	brain
14	chr3:17048000-17051400	Weak transcription	Fetal Lung	lung
15	chr3:17048000-17051400	Weak transcription	Fetal Muscle Leg	muscle
16	chr3:17048000-17051600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr3:17048000-17052600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr3:17048200-17051200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr3:17048200-17051200	Weak transcription	Fetal Thymus	thymus
20	chr3:17048200-17051200	Weak transcription	Left Ventricle	heart
21	chr3:17048200-17051200	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr3:17048200-17051200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr3:17048200-17051200	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr3:17048200-17051400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:17048200-17051400	Weak transcription	Adipose Nuclei	Adipose
26	chr3:17048200-17051600	Weak transcription	Fetal Kidney	kidney
27	chr3:17048200-17052000	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr3:17048200-17052400	Weak transcription	Duodenum Mucosa	Duodenum
29	chr3:17048200-17052600	Weak transcription	Spleen	Spleen
30	chr3:17048200-17053000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:17048200-17053000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:17048200-17053200	Weak transcription	Liver	Liver
33	chr3:17048200-17053200	Weak transcription	Stomach Mucosa	stomach
34	chr3:17048200-17054200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:17048200-17054600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr3:17048200-17054600	Weak transcription	Gastric	stomach
37	chr3:17048200-17054600	Weak transcription	Right Atrium	heart
38	chr3:17048200-17054800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:17048400-17051000	Weak transcription	Primary B cells from peripheral blood	blood
40	chr3:17048400-17051200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr3:17048400-17051400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr3:17048400-17051400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr3:17048400-17051400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr3:17048400-17051800	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr3:17048400-17052000	Weak transcription	Ovary	ovary
46	chr3:17048400-17052200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr3:17048400-17052600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr3:17048400-17052600	Weak transcription	Right Ventricle	heart
49	chr3:17048400-17053000	Weak transcription	Pancreas	Pancrea
50	chr3:17048400-17053200	Weak transcription	Brain Angular Gyrus	brain

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