Variant report

Variant	rs4555967
Chromosome Location	chr6:106510995-106510996
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1010273	0.88[JPT][hapmap]
rs4945741	0.97[ASN][1000 genomes]
rs4946725	0.88[JPT][hapmap]
rs58670852	0.90[ASN][1000 genomes]
rs58813384	0.94[ASN][1000 genomes]
rs6925611	0.97[ASN][1000 genomes]
rs7747748	0.97[ASN][1000 genomes]
rs9373831	0.91[ASN][1000 genomes]
rs9384595	0.97[ASN][1000 genomes]
rs9384597	0.94[ASN][1000 genomes]
rs9384598	0.93[ASN][1000 genomes]
rs9386506	0.97[ASN][1000 genomes]
rs9386507	0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9386508	0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9386509	0.90[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9398060	0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9398061	0.91[ASN][1000 genomes]
rs9398062	0.88[CHB][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025231	chr6:106451012-106634389	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv830755	chr6:106461705-106624202	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4555967	FIG4	cis	cerebellum	SCAN
rs4555967	GPR6	cis	parietal	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106508200-106511200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:106509400-106512000	Weak transcription	Fetal Intestine Small	intestine
3	chr6:106509800-106511200	Weak transcription	Fetal Heart	heart
4	chr6:106510000-106516400	Strong transcription	Fetal Intestine Large	intestine
5	chr6:106510400-106512600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:106510400-106512600	Enhancers	HMEC	breast
7	chr6:106510400-106512800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr6:106510600-106511000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:106510600-106511200	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr6:106510600-106512800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:106510600-106512800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:106510600-106512800	Enhancers	HSMM	muscle
13	chr6:106510600-106512800	Enhancers	NHEK	skin
14	chr6:106510600-106513000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr6:106510600-106513000	Enhancers	HSMMtube	muscle
16	chr6:106510600-106513000	Enhancers	NHDF-Ad	bronchial
17	chr6:106510600-106513200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:106510800-106511200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr6:106510800-106512000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr6:106510800-106512400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:106510800-106513000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:106510800-106513000	Enhancers	Muscle Satellite Cultured Cells	--
23	chr6:106510800-106513000	Enhancers	Osteobl	bone

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