Variant report

Variant	rs9474866
Chromosome Location	chr6:54292601-54292602
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10085281	1.00[AMR][1000 genomes]
rs10948816	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10948818	1.00[AMR][1000 genomes]
rs12386529	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs13437568	1.00[YRI][hapmap]
rs7758800	1.00[AMR][1000 genomes]
rs9296751	1.00[YRI][hapmap]
rs9296752	1.00[YRI][hapmap]
rs9296753	1.00[YRI][hapmap]
rs9464056	1.00[YRI][hapmap]
rs9464057	1.00[YRI][hapmap]
rs9464059	1.00[YRI][hapmap]
rs9464061	0.86[AFR][1000 genomes]
rs9464078	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9464082	1.00[AMR][1000 genomes]
rs9464094	1.00[AMR][1000 genomes]
rs9464099	1.00[AMR][1000 genomes]
rs9474813	1.00[YRI][hapmap]
rs9474816	1.00[YRI][hapmap]
rs9474818	1.00[YRI][hapmap]
rs9474820	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs9474822	0.86[AFR][1000 genomes]
rs9474823	1.00[YRI][hapmap]
rs9474824	1.00[YRI][hapmap]
rs9474826	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs9474846	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9474856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9474857	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9474859	1.00[AMR][1000 genomes]
rs9474864	1.00[AMR][1000 genomes]
rs9474885	1.00[AMR][1000 genomes]
rs9474886	1.00[AMR][1000 genomes]
rs9474889	1.00[AMR][1000 genomes]
rs9474890	1.00[AMR][1000 genomes]
rs9474891	1.00[AMR][1000 genomes]
rs9474892	1.00[AMR][1000 genomes]
rs9474893	1.00[AMR][1000 genomes]
rs9474895	1.00[AMR][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	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv528901	chr6:54290333-54337130	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54291200-54293800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:54291400-54292800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:54291600-54293200	Enhancers	GM12878-XiMat	blood
4	chr6:54291600-54293600	Enhancers	NHEK	skin
5	chr6:54291600-54296200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr6:54291800-54293600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:54291800-54293600	Enhancers	Osteobl	bone
8	chr6:54291800-54294600	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr6:54292000-54292800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:54292000-54293000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:54292000-54293000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr6:54292000-54293000	Enhancers	HMEC	breast
13	chr6:54292000-54293000	Enhancers	NH-A	brain
14	chr6:54292000-54293000	Enhancers	NHDF-Ad	bronchial
15	chr6:54292000-54297000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:54292200-54295600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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