Variant report

Variant	rs3922704
Chromosome Location	chr3:111501185-111501186
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11922220	0.82[TSI][hapmap]
rs13095929	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3922706	0.85[YRI][hapmap]
rs3922707	0.86[YRI][hapmap]
rs3922780	0.85[YRI][hapmap]
rs4075549	0.85[YRI][hapmap]
rs4542994	0.86[YRI][hapmap]
rs4682313	0.83[YRI][hapmap]
rs56086752	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56206679	0.97[ASN][1000 genomes]
rs6782962	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.91[TSI][hapmap]
rs7627909	0.86[YRI][hapmap]
rs9871034	0.85[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	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs3922704	C3orf17	cis	parietal	SCAN
rs3922704	CD200	cis	cerebellum	SCAN
rs3922704	TMPRSS7	cis	parietal	SCAN
rs3922704	TMPRSS7	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111487800-111521000	Weak transcription	Gastric	stomach
2	chr3:111488000-111501400	Weak transcription	Psoas Muscle	Psoas
3	chr3:111496000-111514000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:111496400-111501200	Weak transcription	Fetal Intestine Large	intestine
5	chr3:111497400-111501400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr3:111499000-111518800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:111499400-111501800	Enhancers	Fetal Heart	heart
8	chr3:111499400-111504000	Enhancers	Liver	Liver
9	chr3:111500000-111501400	Enhancers	HSMMtube	muscle
10	chr3:111500200-111501400	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr3:111500200-111501400	Enhancers	NH-A	brain
12	chr3:111500200-111502000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr3:111500200-111502400	Enhancers	Rectal Smooth Muscle	rectum
14	chr3:111500200-111504000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr3:111500200-111504000	Enhancers	NHDF-Ad	bronchial
16	chr3:111500400-111503000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr3:111500600-111501200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:111500600-111501600	Active TSS	Colon Smooth Muscle	Colon
19	chr3:111500600-111501600	Enhancers	Pancreas	Pancrea
20	chr3:111500600-111501600	Enhancers	A549	lung
21	chr3:111500600-111502200	Enhancers	HepG2	liver
22	chr3:111500600-111503400	Enhancers	Fetal Lung	lung
23	chr3:111500800-111501200	Enhancers	Stomach Smooth Muscle	stomach
24	chr3:111500800-111501400	Enhancers	Right Atrium	heart
25	chr3:111500800-111501400	Enhancers	NHLF	lung
26	chr3:111500800-111501600	Enhancers	Left Ventricle	heart
27	chr3:111500800-111505000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr3:111501000-111502600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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