Variant report

Variant	rs62541877
Chromosome Location	chr9:16852453-16852454
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10962638	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10962642	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10962645	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10962647	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10962648	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10962649	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10962652	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10962653	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10962656	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10962658	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10962659	0.91[AMR][1000 genomes]
rs11788047	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11789875	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11792249	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12379687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62541878	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62541879	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62541920	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62541922	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs62541923	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62541926	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv892650	chr9:16696187-16950860	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892651	chr9:16816755-16869240	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv892652	chr9:16843128-16958312	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
5	nsv892653	chr9:16848790-16895610	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
6	esv1814340	chr9:16851678-16865699	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16829200-16852800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:16829800-16864200	Weak transcription	NH-A	brain
3	chr9:16831000-16859600	Weak transcription	HSMM	muscle
4	chr9:16831200-16852600	Weak transcription	Fetal Lung	lung
5	chr9:16831200-16863400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr9:16831200-16864400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr9:16833800-16863800	Weak transcription	NHLF	lung
8	chr9:16834600-16852600	Weak transcription	Fetal Stomach	stomach
9	chr9:16836200-16864400	Weak transcription	NHDF-Ad	bronchial
10	chr9:16843000-16853200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:16846600-16852800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:16848400-16852800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr9:16848600-16852600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:16848600-16852800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:16849000-16852600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr9:16850800-16852600	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr9:16851600-16852600	Weak transcription	Ovary	ovary
18	chr9:16851800-16854200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:16852000-16852800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:16852000-16853000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:16852000-16853400	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr9:16852000-16853400	Enhancers	Colon Smooth Muscle	Colon
23	chr9:16852400-16852800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr9:16852400-16853200	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr9:16852400-16853200	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr9:16852400-16853200	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr9:16852400-16853200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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