Variant report

Variant	rs10962626
Chromosome Location	chr9:16829346-16829347
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10810638	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs10962596	1.00[ASN][1000 genomes]
rs10962623	0.88[CEU][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10962628	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962629	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962630	0.96[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11788101	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11789463	0.84[AMR][1000 genomes]
rs34790477	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36067353	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3936215	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3936216	0.87[CEU][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7024447	0.96[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7863196	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	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
3	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
4	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

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16828000-16829400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr9:16828200-16831000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr9:16828400-16829400	Enhancers	H1 Cell Line	embryonic stem cell
4	chr9:16828400-16829400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:16828400-16829400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:16828400-16829400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr9:16828400-16829400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
8	chr9:16828400-16829400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr9:16828400-16829400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr9:16828400-16829400	Active TSS	Aorta	Aorta
11	chr9:16828400-16829400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
12	chr9:16828400-16829400	Active TSS	Fetal Muscle Trunk	muscle
13	chr9:16828400-16829400	Active TSS	Psoas Muscle	Psoas
14	chr9:16828400-16829400	Active TSS	Right Atrium	heart
15	chr9:16828400-16829400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
16	chr9:16828400-16829400	Flanking Active TSS	HSMM	muscle
17	chr9:16828400-16829400	Flanking Active TSS	NH-A	brain
18	chr9:16828400-16829400	Flanking Active TSS	NHLF	lung
19	chr9:16828400-16829600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr9:16828400-16829800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr9:16828400-16830800	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr9:16828400-16831000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr9:16828600-16829400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr9:16828600-16829400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr9:16828600-16829400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
26	chr9:16828600-16829400	Active TSS	Brain Anterior Caudate	brain
27	chr9:16828600-16829400	Active TSS	Duodenum Smooth Muscle	Duodenum
28	chr9:16828600-16829400	Enhancers	Fetal Brain Male	brain
29	chr9:16828600-16829400	Bivalent Enhancer	Fetal Heart	heart
30	chr9:16828600-16829400	Active TSS	Ovary	ovary
31	chr9:16828800-16829400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr9:16828800-16829400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
33	chr9:16828800-16829400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr9:16828800-16829400	Active TSS	NHEK	skin
35	chr9:16829000-16829400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr9:16829000-16829400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
37	chr9:16829000-16829400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
38	chr9:16829000-16829400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
39	chr9:16829000-16829400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr9:16829000-16829400	Enhancers	Colonic Mucosa	Colon
41	chr9:16829000-16829400	Flanking Active TSS	Fetal Muscle Leg	muscle
42	chr9:16829000-16829400	Enhancers	Rectal Mucosa Donor 29	rectum
43	chr9:16829200-16829400	Flanking Active TSS	H9 Cell Line	embryonic stem cell
44	chr9:16829200-16829400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
45	chr9:16829200-16829400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr9:16829200-16829400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr9:16829200-16829400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood
48	chr9:16829200-16829400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr9:16829200-16829400	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr9:16829200-16829400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

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