Variant report

Variant	rs28606464
Chromosome Location	chr9:16628945-16628946
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10116442	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10118976	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10120377	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10122908	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10123190	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10123447	0.81[AFR][1000 genomes]
rs10124351	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12337526	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12340628	1.00[AMR][1000 genomes]
rs12343482	1.00[AMR][1000 genomes]
rs12346569	1.00[AMR][1000 genomes]
rs12347244	1.00[AMR][1000 genomes]
rs16934769	1.00[AMR][1000 genomes]
rs28401329	1.00[AMR][1000 genomes]
rs28416165	0.90[AFR][1000 genomes]
rs28478439	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9886749	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv430000	chr9:16603483-16671045	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16624200-16629000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr9:16624200-16629200	Enhancers	Fetal Stomach	stomach
3	chr9:16624200-16630400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:16625000-16630000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:16625600-16629000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr9:16625800-16629600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:16625800-16629600	Enhancers	Fetal Muscle Leg	muscle
8	chr9:16627000-16629600	Enhancers	NH-A	brain
9	chr9:16627000-16636600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:16627200-16631800	Weak transcription	NHEK	skin
11	chr9:16627200-16637000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr9:16627400-16629200	Enhancers	Colon Smooth Muscle	Colon
13	chr9:16628000-16629000	Flanking Active TSS	HSMMtube	muscle
14	chr9:16628400-16629200	Flanking Active TSS	NHLF	lung
15	chr9:16628400-16629400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr9:16628600-16629400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr9:16628600-16629800	Weak transcription	Rectal Smooth Muscle	rectum
18	chr9:16628800-16629000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:16628800-16629000	Enhancers	Fetal Lung	lung
20	chr9:16628800-16629200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:16628800-16629200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr9:16628800-16629200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr9:16628800-16629400	Weak transcription	Ovary	ovary
24	chr9:16628800-16629400	Enhancers	HSMM	muscle
25	chr9:16628800-16629600	Enhancers	HUVEC	blood vessel
26	chr9:16628800-16629600	Enhancers	NHDF-Ad	bronchial
27	chr9:16628800-16629600	Enhancers	Osteobl	bone
28	chr9:16628800-16629800	Enhancers	Muscle Satellite Cultured Cells	--
29	chr9:16628800-16629800	Enhancers	Dnd41	blood
30	chr9:16628800-16630200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr9:16628800-16630600	Weak transcription	HUES48 Cell Line	embryonic stem cell

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