Variant report

Variant	rs2639463
Chromosome Location	chr10:44566061-44566062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10899973	0.84[EUR][1000 genomes]
rs11238817	0.84[EUR][1000 genomes]
rs11238818	0.84[EUR][1000 genomes]
rs12570314	0.81[CEU][hapmap]
rs1472168	0.82[EUR][1000 genomes]
rs1482478	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2047009	0.84[EUR][1000 genomes]
rs2128363	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2624694	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2624695	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2802490	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2804029	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2818904	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2818914	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4948818	0.81[AMR][1000 genomes]
rs7903121	0.84[EUR][1000 genomes]
rs9332446	0.84[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2639463	CSGALNACT2	cis	parietal	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44563000-44567600	Enhancers	Liver	Liver
2	chr10:44564000-44566400	Enhancers	Pancreas	Pancrea
3	chr10:44564000-44567800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr10:44564000-44567800	Enhancers	NHDF-Ad	bronchial
5	chr10:44564200-44566200	Enhancers	Adipose Nuclei	Adipose
6	chr10:44564400-44567800	Enhancers	Stomach Smooth Muscle	stomach
7	chr10:44564600-44566400	Enhancers	Brain Germinal Matrix	brain
8	chr10:44564600-44566600	Enhancers	Fetal Stomach	stomach
9	chr10:44564800-44566200	Enhancers	Brain Hippocampus Middle	brain
10	chr10:44564800-44566600	Weak transcription	Osteobl	bone
11	chr10:44564800-44567000	Enhancers	Fetal Brain Male	brain
12	chr10:44564800-44568000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr10:44565000-44566200	Enhancers	Brain Anterior Caudate	brain
14	chr10:44565000-44566400	Enhancers	Rectal Smooth Muscle	rectum
15	chr10:44565000-44566600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:44565200-44566200	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr10:44565200-44566200	Enhancers	Brain Cingulate Gyrus	brain
18	chr10:44565200-44566200	Enhancers	Brain Substantia Nigra	brain
19	chr10:44565200-44567200	Enhancers	Fetal Brain Female	brain
20	chr10:44565400-44566200	Enhancers	Brain Angular Gyrus	brain
21	chr10:44565400-44566200	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr10:44565400-44566800	Enhancers	Colon Smooth Muscle	Colon
23	chr10:44565600-44566200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr10:44565600-44566400	Enhancers	Left Ventricle	heart
25	chr10:44565800-44566200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr10:44565800-44566200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr10:44565800-44566200	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr10:44565800-44566200	Enhancers	Esophagus	oesophagus
29	chr10:44565800-44566200	Enhancers	Right Ventricle	heart
30	chr10:44565800-44566400	Enhancers	Aorta	Aorta
31	chr10:44565800-44566400	Enhancers	Fetal Muscle Trunk	muscle
32	chr10:44565800-44566400	Enhancers	Fetal Muscle Leg	muscle
33	chr10:44565800-44566400	Enhancers	Lung	lung
34	chr10:44565800-44566400	Enhancers	Ovary	ovary
35	chr10:44565800-44566400	Enhancers	Right Atrium	heart

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