Variant report

Variant	rs3844161
Chromosome Location	chr10:61585321-61585322
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10458645	1.00[ASW][hapmap];0.96[CEU][hapmap];0.92[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10509112	0.85[CHB][hapmap];0.87[CHD][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs10761414	0.84[GIH][hapmap]
rs10761415	0.82[GIH][hapmap]
rs10821604	1.00[CEU][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10821605	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10821606	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10821607	1.00[CEU][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10994021	0.85[JPT][hapmap]
rs10994022	0.82[JPT][hapmap]
rs10994026	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs10994027	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs10994030	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs10994031	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs10994051	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1149660	0.85[JPT][hapmap]
rs1149661	0.81[ASN][1000 genomes]
rs1149662	0.81[ASN][1000 genomes]
rs1171786	0.89[CHB][hapmap];0.90[CHD][hapmap];0.83[ASN][1000 genomes]
rs1171788	0.87[ASN][1000 genomes]
rs12243564	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];0.90[JPT][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12244844	0.83[ASN][1000 genomes]
rs12252428	0.84[ASN][1000 genomes]
rs12259529	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12262735	0.85[CHB][hapmap]
rs12266466	0.84[ASN][1000 genomes]
rs1621496	0.89[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs1664255	0.88[ASN][1000 genomes]
rs1664256	0.88[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs1664284	0.94[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1664285	0.94[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1684896	0.88[ASN][1000 genomes]
rs1684901	0.85[JPT][hapmap]
rs16914233	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs1709342	0.85[JPT][hapmap]
rs1709343	0.85[JPT][hapmap]
rs1709345	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs1871637	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1871638	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.91[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2120989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2120990	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2271562	0.88[JPT][hapmap]
rs2393572	0.86[GIH][hapmap]
rs2440926	0.85[JPT][hapmap]
rs2458661	0.82[CEU][hapmap];0.92[CHD][hapmap];0.82[GIH][hapmap];0.90[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2458663	0.94[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs3106569	0.94[ASN][1000 genomes]
rs3793878	0.85[JPT][hapmap]
rs3851247	0.81[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3851248	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3862860	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3862861	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3999569	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3999570	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4948244	0.85[CHB][hapmap];0.87[CHD][hapmap]
rs4948372	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4948373	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4948374	0.92[CHD][hapmap];0.95[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4948375	0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55706286	0.83[ASN][1000 genomes]
rs55842846	0.91[ASN][1000 genomes]
rs57032269	0.81[ASN][1000 genomes]
rs57348988	0.84[ASN][1000 genomes]
rs61848702	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6479653	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs6479654	0.96[CEU][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6479657	0.91[ASN][1000 genomes]
rs6479658	0.81[ASN][1000 genomes]
rs6479659	0.94[ASN][1000 genomes]
rs6479660	0.93[ASN][1000 genomes]
rs6479661	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6479662	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7068104	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7068247	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7070800	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7074685	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7075215	0.80[GIH][hapmap]
rs7078533	0.88[JPT][hapmap];0.84[ASN][1000 genomes]
rs7079228	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.95[TSI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7079588	0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs7088755	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs7088808	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7088886	0.96[CEU][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7092259	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs7099368	0.84[GIH][hapmap]
rs72817923	0.83[ASN][1000 genomes]
rs7894842	0.82[GIH][hapmap]
rs7908517	0.96[CEU][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7910256	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs7920049	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs7920403	1.00[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9663498	0.82[CEU][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9664183	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3844161	EGR2	cis	parietal	SCAN

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61565400-61586600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr10:61567000-61593600	Weak transcription	Small Intestine	intestine
3	chr10:61571000-61591200	Weak transcription	NHEK	skin
4	chr10:61571400-61628000	Weak transcription	Spleen	Spleen
5	chr10:61571600-61585400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:61571600-61585800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr10:61571600-61585800	Weak transcription	Lung	lung
8	chr10:61571600-61585800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr10:61571600-61595800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:61571600-61598400	Weak transcription	Fetal Brain Female	brain
11	chr10:61571600-61609200	Weak transcription	NHLF	lung
12	chr10:61571600-61616000	Weak transcription	Fetal Kidney	kidney
13	chr10:61572000-61615000	Weak transcription	Colonic Mucosa	Colon
14	chr10:61572400-61589200	Weak transcription	K562	blood
15	chr10:61572400-61591200	Weak transcription	Hela-S3	cervix
16	chr10:61572400-61618800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr10:61572800-61591200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr10:61572800-61591200	Weak transcription	Stomach Smooth Muscle	stomach
19	chr10:61573000-61598400	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr10:61573400-61585600	Weak transcription	Adipose Nuclei	Adipose
21	chr10:61574200-61586200	Weak transcription	Placenta	Placenta
22	chr10:61574200-61589000	Weak transcription	Liver	Liver
23	chr10:61574200-61589200	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr10:61574600-61588400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr10:61574600-61589000	Weak transcription	HMEC	breast
26	chr10:61574600-61589200	Weak transcription	Fetal Thymus	thymus
27	chr10:61574800-61587400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr10:61574800-61589400	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr10:61576000-61586800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr10:61576600-61594400	Weak transcription	Fetal Heart	heart
31	chr10:61578000-61585800	Weak transcription	Gastric	stomach
32	chr10:61578000-61586400	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr10:61578000-61590600	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr10:61578000-61590600	Weak transcription	NH-A	brain
35	chr10:61578000-61590800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr10:61578000-61591400	Weak transcription	Rectal Smooth Muscle	rectum
37	chr10:61578000-61623200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr10:61578200-61585800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr10:61578200-61589600	Weak transcription	Brain Angular Gyrus	brain
40	chr10:61578200-61590400	Weak transcription	Osteobl	bone
41	chr10:61578200-61590600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr10:61578200-61591200	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr10:61578200-61591400	Weak transcription	Esophagus	oesophagus
44	chr10:61578200-61595400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr10:61578200-61597800	Weak transcription	HSMMtube	muscle
46	chr10:61578400-61585600	Weak transcription	Fetal Muscle Leg	muscle
47	chr10:61578400-61585800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr10:61578400-61586200	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr10:61578400-61591200	Weak transcription	HSMM	muscle
50	chr10:61578400-61603400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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