Variant report

Variant	rs725926
Chromosome Location	chr10:97246684-97246685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10509690	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11595114	1.00[CHB][hapmap];0.84[GIH][hapmap];0.83[ASN][1000 genomes]
rs12414693	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs12415079	0.83[ASN][1000 genomes]
rs12415681	0.83[ASN][1000 genomes]
rs12416103	1.00[JPT][hapmap]
rs45572141	0.87[AMR][1000 genomes]
rs4918940	0.95[GIH][hapmap];0.87[LWK][hapmap];0.81[MEX][hapmap]
rs55941659	0.87[AMR][1000 genomes]
rs61868706	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045002	chr10:97214418-97250630	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs725926	C10orf131	cis	cerebellum	SCAN
rs725926	C10orf62	cis	parietal	SCAN
rs725926	CYP2C8	cis	lymphoblastoid	seeQTL
rs725926	FRAT2	cis	cerebellum	SCAN
rs725926	CYP26A1	cis	cerebellum	SCAN

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97237200-97254000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:97239600-97260800	Weak transcription	Brain Germinal Matrix	brain
3	chr10:97240600-97253000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:97240800-97248800	Weak transcription	Fetal Brain Female	brain
5	chr10:97240800-97253400	Weak transcription	Duodenum Mucosa	Duodenum
6	chr10:97241000-97247200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr10:97241000-97260600	Weak transcription	Fetal Muscle Trunk	muscle
8	chr10:97241400-97253600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr10:97241600-97246800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr10:97241600-97254000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr10:97241600-97260400	Weak transcription	Fetal Brain Male	brain
12	chr10:97241600-97260600	Weak transcription	Fetal Stomach	stomach
13	chr10:97241800-97249200	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr10:97241800-97256400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr10:97242000-97253800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr10:97242000-97256400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr10:97242600-97247200	Weak transcription	Psoas Muscle	Psoas
18	chr10:97242600-97248200	Weak transcription	Fetal Heart	heart
19	chr10:97242600-97252200	Weak transcription	Pancreas	Pancrea
20	chr10:97242800-97247200	Weak transcription	Liver	Liver
21	chr10:97242800-97256000	Weak transcription	Fetal Muscle Leg	muscle
22	chr10:97243000-97247000	Weak transcription	Colon Smooth Muscle	Colon
23	chr10:97243000-97253400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr10:97244200-97253200	Weak transcription	Lung	lung
25	chr10:97244800-97247000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr10:97244800-97247200	Weak transcription	Fetal Intestine Small	intestine
27	chr10:97245200-97249200	Weak transcription	Fetal Intestine Large	intestine
28	chr10:97245200-97249800	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr10:97245200-97251000	Genic enhancers	Stomach Smooth Muscle	stomach
30	chr10:97245200-97252200	Weak transcription	Gastric	stomach
31	chr10:97245400-97250400	Weak transcription	Stomach Mucosa	stomach
32	chr10:97245400-97252400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:97245400-97259200	Weak transcription	Brain Substantia Nigra	brain
34	chr10:97245400-97264600	Weak transcription	Ovary	ovary
35	chr10:97245600-97247000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr10:97245800-97247200	Weak transcription	HSMM	muscle
37	chr10:97245800-97250600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr10:97245800-97254000	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr10:97245800-97259400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr10:97246000-97247000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr10:97246000-97247000	Weak transcription	Brain Angular Gyrus	brain
42	chr10:97246000-97247000	Weak transcription	Left Ventricle	heart
43	chr10:97246000-97247200	Weak transcription	Right Ventricle	heart
44	chr10:97246000-97248800	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr10:97246000-97249200	Weak transcription	Aorta	Aorta
46	chr10:97246000-97249200	Weak transcription	HepG2	liver
47	chr10:97246200-97248600	Weak transcription	Brain Anterior Caudate	brain
48	chr10:97246200-97248600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr10:97246200-97249400	Weak transcription	Right Atrium	heart
50	chr10:97246200-97250600	Weak transcription	Fetal Lung	lung

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