Variant report

Variant	rs28662101
Chromosome Location	chr9:6356469-6356470
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10114583	0.90[AFR][1000 genomes]
rs10119195	0.90[AFR][1000 genomes]
rs10120935	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10491837	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12351049	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16924430	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28373394	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56171389	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61113106	0.90[AFR][1000 genomes]
rs7032806	0.86[AFR][1000 genomes]
rs7047585	0.85[AFR][1000 genomes]
rs7863207	0.90[AFR][1000 genomes]
rs7866247	0.90[AFR][1000 genomes]
rs7866356	0.90[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1031086	chr9:5806949-6630686	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv539967	chr9:5806949-6630686	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv933124	chr9:6099101-6644738	Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv1029000	chr9:6188652-6687205	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
6	nsv1031459	chr9:6216913-6657192	Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv948562	chr9:6222553-6684955	Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
8	nsv1024324	chr9:6308178-6408875	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1032350	chr9:6328167-6630686	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv1019222	chr9:6328242-6402856	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:6354000-6357200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr9:6354000-6357200	Enhancers	Muscle Satellite Cultured Cells	--
3	chr9:6354000-6357400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr9:6354000-6357400	Enhancers	HMEC	breast
5	chr9:6354000-6357400	Enhancers	Osteobl	bone
6	chr9:6354000-6358200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:6354400-6356800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr9:6354400-6357200	Enhancers	NHDF-Ad	bronchial
9	chr9:6354400-6357400	Enhancers	GM12878-XiMat	blood
10	chr9:6354400-6357400	Enhancers	NHLF	lung
11	chr9:6354600-6357400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr9:6354600-6358000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr9:6355200-6357400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:6355200-6357400	Enhancers	Hela-S3	cervix
15	chr9:6355400-6357400	Enhancers	NHEK	skin
16	chr9:6355600-6357400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:6355800-6356600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:6355800-6357400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr9:6355800-6357400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:6356000-6357000	Weak transcription	NH-A	brain
21	chr9:6356200-6357200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

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