Variant report

Variant	rs538800
Chromosome Location	chr11:94239567-94239568
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10741488	0.83[EUR][1000 genomes]
rs10831222	0.87[CEU][hapmap];0.88[CHD][hapmap];0.81[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs10831227	0.86[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11020774	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1257783	0.87[EUR][1000 genomes]
rs2155209	0.87[CEU][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];0.81[LWK][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2508781	0.84[AMR][1000 genomes]
rs2508783	0.81[CHD][hapmap];0.92[GIH][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes]
rs3758787	0.87[CEU][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs3824878	0.87[EUR][1000 genomes]
rs4459257	0.87[CEU][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs485146	0.87[EUR][1000 genomes]
rs489333	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs491404	0.88[EUR][1000 genomes]
rs492073	0.87[EUR][1000 genomes]
rs514060	0.88[EUR][1000 genomes]
rs516037	0.87[CEU][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes]
rs528193	0.84[AMR][1000 genomes]
rs534402	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs541090	0.87[EUR][1000 genomes]
rs546439	0.87[CEU][hapmap];0.91[CHD][hapmap];0.80[GIH][hapmap];0.81[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs554715	0.87[CEU][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs556477	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs557888	0.87[CHB][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs560190	0.93[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs563882	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs572372	0.87[EUR][1000 genomes]
rs583534	0.87[EUR][1000 genomes]
rs584531	0.87[CEU][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs587667	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs588774	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs591724	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs592943	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs595672	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs601391	0.87[CEU][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs604845	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs610611	0.87[CEU][hapmap];0.86[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs618690	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs646130	0.87[CEU][hapmap];0.91[CHD][hapmap];0.88[JPT][hapmap];0.90[MEX][hapmap];0.93[TSI][hapmap];0.86[EUR][1000 genomes]
rs657830	0.87[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs661957	0.87[CEU][hapmap];0.88[JPT][hapmap];0.88[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs538800	GPR83	cis	cerebellum	SCAN
rs538800	MRE11A	cis	cerebellum	SCAN
rs538800	MRE11A	cis	parietal	SCAN
rs538800	GNA11	trans	parietal	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:94227800-94245200	Weak transcription	Gastric	stomach
2	chr11:94228000-94245000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr11:94228000-94245200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr11:94228000-94245800	Weak transcription	Stomach Mucosa	stomach
5	chr11:94228400-94245200	Weak transcription	Fetal Stomach	stomach
6	chr11:94231600-94245200	Weak transcription	Esophagus	oesophagus
7	chr11:94232400-94245000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr11:94232600-94245200	Weak transcription	NHLF	lung
9	chr11:94232800-94245200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr11:94233000-94245200	Weak transcription	Psoas Muscle	Psoas
11	chr11:94233400-94240600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr11:94233400-94245200	Weak transcription	Fetal Intestine Large	intestine
13	chr11:94233600-94240800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr11:94233600-94245000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr11:94233600-94245000	Weak transcription	Brain Hippocampus Middle	brain
16	chr11:94233600-94245000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr11:94233600-94245200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr11:94233600-94245200	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr11:94233600-94245200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr11:94233600-94245200	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr11:94233600-94245200	Weak transcription	Colon Smooth Muscle	Colon
22	chr11:94233600-94245200	Weak transcription	Ovary	ovary
23	chr11:94233600-94245200	Weak transcription	Spleen	Spleen
24	chr11:94233600-94245200	Weak transcription	NHDF-Ad	bronchial
25	chr11:94233600-94245400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr11:94233800-94245200	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr11:94233800-94245200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr11:94234000-94240200	Weak transcription	Colonic Mucosa	Colon
29	chr11:94234000-94240600	Weak transcription	Rectal Smooth Muscle	rectum
30	chr11:94234000-94240600	Weak transcription	HMEC	breast
31	chr11:94234000-94245000	Weak transcription	Fetal Kidney	kidney
32	chr11:94234000-94245000	Weak transcription	NHEK	skin
33	chr11:94234000-94245200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr11:94234000-94245200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr11:94234200-94240200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr11:94234200-94245000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr11:94234200-94245200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr11:94234200-94245200	Weak transcription	Brain Substantia Nigra	brain
39	chr11:94234200-94245200	Weak transcription	Duodenum Mucosa	Duodenum
40	chr11:94234200-94245200	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr11:94234200-94245200	Weak transcription	Stomach Smooth Muscle	stomach
42	chr11:94234400-94240600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr11:94234400-94245000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr11:94234400-94245200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr11:94235000-94245000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr11:94235200-94244800	Weak transcription	Liver	Liver
47	chr11:94235400-94239600	Weak transcription	Primary T cells from cord blood	blood
48	chr11:94235400-94240000	Weak transcription	Left Ventricle	heart
49	chr11:94235400-94241000	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr11:94235400-94245000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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