Variant report

Variant	rs9396204
Chromosome Location	chr6:56194469-56194470
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11757881	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9349817	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs9357910	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9475664	0.91[GIH][hapmap]
rs9475671	0.91[GIH][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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9396204	GSTA5	cis	parietal	SCAN
rs9396204	BMP5	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56192400-56194600	Enhancers	Fetal Kidney	kidney
2	chr6:56193200-56194800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:56193400-56194600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:56193400-56194600	Enhancers	Fetal Stomach	stomach
5	chr6:56193400-56194600	Enhancers	HSMM	muscle
6	chr6:56193400-56194600	Enhancers	NHLF	lung
7	chr6:56193600-56194600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr6:56193600-56194600	Enhancers	HSMMtube	muscle
9	chr6:56193600-56194800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:56193800-56195000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:56193800-56195600	Enhancers	Osteobl	bone
12	chr6:56194000-56194600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:56194000-56194600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:56194000-56194600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr6:56194000-56194600	Flanking Active TSS	HUVEC	blood vessel
16	chr6:56194000-56194800	Enhancers	NH-A	brain
17	chr6:56194000-56195000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:56194200-56194600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:56194200-56194600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
20	chr6:56194200-56194600	Enhancers	Adipose Nuclei	Adipose
21	chr6:56194200-56194600	Enhancers	NHDF-Ad	bronchial
22	chr6:56194200-56195400	Enhancers	Fetal Lung	lung
23	chr6:56194400-56203600	Weak transcription	Colon Smooth Muscle	Colon

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