Variant report

Variant	rs166899
Chromosome Location	chr1:165394145-165394146
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs113471	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1467664	0.95[JPT][hapmap]
rs157871	1.00[CEU][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs157875	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs157876	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs157880	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs157881	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs157883	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs166897	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1831002	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs285482	0.90[MEX][hapmap]
rs3767348	0.84[ASN][1000 genomes]
rs463638	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs517456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6669441	0.93[ASW][hapmap];0.81[CEU][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs166899	KCNJ10	cis	parietal	SCAN
rs166899	PLS3	trans	lymphoblastoid	seeQTL

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165378000-165399600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr1:165392600-165394600	Enhancers	Placenta	Placenta
3	chr1:165393200-165394200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr1:165393200-165394400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
5	chr1:165393200-165394600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr1:165393200-165394600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr1:165393200-165394600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr1:165393200-165395200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr1:165393400-165394200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
10	chr1:165393400-165394200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr1:165393400-165394200	Active TSS	Brain Hippocampus Middle	brain
12	chr1:165393400-165394200	Active TSS	NHLF	lung
13	chr1:165393400-165394400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr1:165393400-165394400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
15	chr1:165393400-165394400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
16	chr1:165393400-165394400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
17	chr1:165393400-165394600	Flanking Active TSS	Adipose Nuclei	Adipose
18	chr1:165393400-165394800	Flanking Active TSS	Fetal Lung	lung
19	chr1:165393600-165394200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
20	chr1:165393600-165394200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
21	chr1:165393600-165394200	Flanking Active TSS	Brain Anterior Caudate	brain
22	chr1:165393600-165394200	Enhancers	GM12878-XiMat	blood
23	chr1:165393600-165394400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
24	chr1:165393600-165394400	Flanking Active TSS	Duodenum Mucosa	Duodenum
25	chr1:165393600-165394400	Active TSS	Rectal Mucosa Donor 29	rectum
26	chr1:165393600-165395000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr1:165393800-165394200	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
28	chr1:165393800-165394200	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr1:165393800-165394200	Flanking Active TSS	Liver	Liver
30	chr1:165393800-165394200	Flanking Active TSS	Brain Cingulate Gyrus	brain
31	chr1:165393800-165394200	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
32	chr1:165393800-165394200	Flanking Active TSS	Brain Substantia Nigra	brain
33	chr1:165393800-165394200	Enhancers	Esophagus	oesophagus
34	chr1:165393800-165394200	Flanking Active TSS	Psoas Muscle	Psoas
35	chr1:165393800-165394200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
36	chr1:165393800-165394200	Flanking Active TSS	Stomach Mucosa	stomach
37	chr1:165393800-165394200	Flanking Active TSS	Osteobl	bone
38	chr1:165393800-165394400	Flanking Active TSS	Fetal Muscle Trunk	muscle
39	chr1:165393800-165394800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
40	chr1:165393800-165395400	Enhancers	Left Ventricle	heart
41	chr1:165394000-165394200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
42	chr1:165394000-165394200	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr1:165394000-165394200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
44	chr1:165394000-165394200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
45	chr1:165394000-165394200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
46	chr1:165394000-165394200	Enhancers	Rectal Mucosa Donor 31	rectum
47	chr1:165394000-165394200	Flanking Active TSS	Right Atrium	heart
48	chr1:165394000-165394200	Enhancers	Sigmoid Colon	Sigmoid Colon
49	chr1:165394000-165394200	Enhancers	Spleen	Spleen
50	chr1:165394000-165394200	Flanking Active TSS	NHDF-Ad	bronchial

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