Variant report

Variant	rs4369330
Chromosome Location	chr10:97247616-97247617
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10748632	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10882603	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10882604	0.92[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10882606	0.82[YRI][hapmap]
rs1571131	0.83[ASW][hapmap];0.92[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.97[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];0.86[TSI][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1575948	0.80[EUR][1000 genomes]
rs1887228	0.92[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4328157	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4572071	0.82[YRI][hapmap]

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:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4369330	PPP1R3C	cis	parietal	SCAN
rs4369330	ZFYVE27	cis	parietal	SCAN
rs4369330	LMOD3	trans	cerebellum	SCAN

Chromatin state (count:51 , 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	chr10:97241000-97260600	Weak transcription	Fetal Muscle Trunk	muscle
7	chr10:97241400-97253600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr10:97241600-97254000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr10:97241600-97260400	Weak transcription	Fetal Brain Male	brain
10	chr10:97241600-97260600	Weak transcription	Fetal Stomach	stomach
11	chr10:97241800-97249200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr10:97241800-97256400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:97242000-97253800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr10:97242000-97256400	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr10:97242600-97248200	Weak transcription	Fetal Heart	heart
16	chr10:97242600-97252200	Weak transcription	Pancreas	Pancrea
17	chr10:97242800-97256000	Weak transcription	Fetal Muscle Leg	muscle
18	chr10:97243000-97253400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr10:97244200-97253200	Weak transcription	Lung	lung
20	chr10:97245200-97249200	Weak transcription	Fetal Intestine Large	intestine
21	chr10:97245200-97249800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr10:97245200-97251000	Genic enhancers	Stomach Smooth Muscle	stomach
23	chr10:97245200-97252200	Weak transcription	Gastric	stomach
24	chr10:97245400-97250400	Weak transcription	Stomach Mucosa	stomach
25	chr10:97245400-97252400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr10:97245400-97259200	Weak transcription	Brain Substantia Nigra	brain
27	chr10:97245400-97264600	Weak transcription	Ovary	ovary
28	chr10:97245800-97250600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr10:97245800-97254000	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr10:97245800-97259400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr10:97246000-97248800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr10:97246000-97249200	Weak transcription	Aorta	Aorta
33	chr10:97246000-97249200	Weak transcription	HepG2	liver
34	chr10:97246200-97248600	Weak transcription	Brain Anterior Caudate	brain
35	chr10:97246200-97248600	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr10:97246200-97249400	Weak transcription	Right Atrium	heart
37	chr10:97246200-97250600	Weak transcription	Fetal Lung	lung
38	chr10:97246200-97256600	Weak transcription	Brain Cingulate Gyrus	brain
39	chr10:97246400-97256000	Weak transcription	HSMMtube	muscle
40	chr10:97246800-97248800	Enhancers	Rectal Smooth Muscle	rectum
41	chr10:97247000-97249200	Enhancers	Colon Smooth Muscle	Colon
42	chr10:97247000-97251000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr10:97247200-97247800	Enhancers	Psoas Muscle	Psoas
44	chr10:97247200-97248600	Enhancers	Liver	Liver
45	chr10:97247400-97248600	Weak transcription	Fetal Intestine Small	intestine
46	chr10:97247400-97249000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr10:97247400-97250800	Weak transcription	Brain Angular Gyrus	brain
48	chr10:97247400-97259800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr10:97247600-97248400	Weak transcription	Left Ventricle	heart
50	chr10:97247600-97249400	Weak transcription	Right Ventricle	heart

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