Variant report

Variant	rs62541923
Chromosome Location	chr9:16870501-16870502
allele	A/C
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	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10962642	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10962645	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962647	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962648	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962649	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10962652	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10962653	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10962656	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10962658	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10962659	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11788047	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11789875	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11792249	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12379687	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62541877	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62541878	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62541879	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62541920	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62541922	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62541926	0.94[AMR][1000 genomes];0.99[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	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
4	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
5	nsv1018615	chr9:16865804-16960970	Active TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
6	nsv540074	chr9:16865804-16960970	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16865000-16872000	Active TSS	Stomach Smooth Muscle	stomach
2	chr9:16866400-16871800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:16866600-16872200	Active TSS	NHLF	lung
4	chr9:16866800-16872000	Active TSS	Duodenum Smooth Muscle	Duodenum
5	chr9:16867600-16871600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr9:16867600-16872200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:16867600-16872200	Active TSS	Colon Smooth Muscle	Colon
8	chr9:16867600-16872400	Active TSS	Ovary	ovary
9	chr9:16867800-16871200	Active TSS	Fetal Stomach	stomach
10	chr9:16868000-16872200	Active TSS	Right Atrium	heart
11	chr9:16868000-16872200	Active TSS	HSMM	muscle
12	chr9:16868200-16872000	Active TSS	HSMMtube	muscle
13	chr9:16868400-16872400	Active TSS	Rectal Smooth Muscle	rectum
14	chr9:16868800-16870600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:16868800-16872400	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr9:16869000-16872200	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
17	chr9:16869000-16872400	Active TSS	H1 Cell Line	embryonic stem cell
18	chr9:16869200-16871800	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:16869200-16872200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr9:16869200-16872200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr9:16869200-16872200	Active TSS	Fetal Intestine Large	intestine
22	chr9:16869400-16870600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
23	chr9:16869400-16870800	Bivalent/Poised TSS	Brain Anterior Caudate	brain
24	chr9:16869400-16871200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr9:16869400-16871200	Flanking Bivalent TSS/Enh	Dnd41	blood
26	chr9:16869400-16871600	Active TSS	Right Ventricle	heart
27	chr9:16869400-16872000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr9:16869400-16872000	Active TSS	Esophagus	oesophagus
29	chr9:16869400-16872000	Active TSS	Lung	lung
30	chr9:16869400-16872200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
31	chr9:16869400-16872200	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
32	chr9:16869400-16872400	Active TSS	H9 Cell Line	embryonic stem cell
33	chr9:16869400-16872400	Active TSS	iPS-15b Cell Line	embryonic stem cell
34	chr9:16869600-16871000	Bivalent Enhancer	Fetal Heart	heart
35	chr9:16869600-16871200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr9:16869600-16871600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr9:16869600-16871800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr9:16869600-16872000	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr9:16869600-16872000	Active TSS	Muscle Satellite Cultured Cells	--
40	chr9:16869600-16872000	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
41	chr9:16869600-16872000	Active TSS	Gastric	stomach
42	chr9:16869600-16872200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr9:16869600-16872200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr9:16869600-16872200	Active TSS	HUES48 Cell Line	embryonic stem cell
45	chr9:16869600-16872200	Active TSS	Psoas Muscle	Psoas
46	chr9:16869600-16872400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
47	chr9:16869600-16872400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr9:16869600-16872400	Active TSS	Skeletal Muscle Female	skeletal muscle
49	chr9:16869800-16871000	Enhancers	Liver	Liver
50	chr9:16869800-16871400	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain

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