Variant report

Variant	rs10962470
Chromosome Location	chr9:16515053-16515054
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10118463	0.82[ASN][1000 genomes]
rs10118467	0.85[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10119184	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs10122434	0.81[ASN][1000 genomes]
rs10123674	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs10124550	0.85[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10124554	0.85[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10756756	0.83[CHB][hapmap];0.83[ASN][1000 genomes]
rs10810572	0.87[ASN][1000 genomes]
rs10810573	0.87[ASN][1000 genomes]
rs10810575	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs10962457	0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10962458	0.86[ASN][1000 genomes]
rs10962459	0.86[ASN][1000 genomes]
rs10962461	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10962463	0.83[ASN][1000 genomes]
rs10962468	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10962475	0.96[AMR][1000 genomes]
rs10962522	1.00[CEU][hapmap]
rs12156570	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12377857	0.81[ASN][1000 genomes]
rs1927631	0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs7021958	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs7024707	0.85[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs7028447	0.89[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs7028503	0.81[ASN][1000 genomes]
rs7028666	0.85[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs7043485	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs7044580	0.89[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs73417442	0.82[ASN][1000 genomes]
rs7848343	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs7848584	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs7848696	0.85[CHB][hapmap]
rs7849139	0.94[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv892647	chr9:16476144-16521534	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv466265	chr9:16484731-16516941	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS	n/a	n/a	inside rSNPs	diseases
7	nsv613670	chr9:16484731-16516941	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16506000-16515200	Weak transcription	Adipose Nuclei	Adipose
2	chr9:16510200-16515200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr9:16510200-16515400	Weak transcription	Aorta	Aorta
4	chr9:16510400-16515200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr9:16512000-16515400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr9:16512400-16517400	Enhancers	Ovary	ovary
7	chr9:16513000-16515400	Weak transcription	Gastric	stomach
8	chr9:16513600-16515200	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr9:16513600-16517200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:16513600-16517200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr9:16513600-16517400	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:16513800-16517200	Enhancers	H9 Cell Line	embryonic stem cell
13	chr9:16513800-16517200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:16513800-16517600	Enhancers	Fetal Stomach	stomach
15	chr9:16513800-16517800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:16514000-16515200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
17	chr9:16514000-16515800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:16514000-16516000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr9:16514000-16516200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:16514000-16516200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr9:16514000-16516200	Enhancers	HSMMtube	muscle
22	chr9:16514000-16516600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
23	chr9:16514000-16517200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr9:16514000-16517200	Enhancers	HSMM	muscle
25	chr9:16514000-16517400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
26	chr9:16514000-16517600	Enhancers	Muscle Satellite Cultured Cells	--
27	chr9:16514000-16517800	Enhancers	Colon Smooth Muscle	Colon
28	chr9:16514000-16518000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr9:16514000-16518000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr9:16514000-16518000	Enhancers	NHLF	lung
31	chr9:16514000-16518000	Enhancers	Osteobl	bone
32	chr9:16514200-16515200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr9:16514200-16515600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr9:16514200-16515600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
35	chr9:16514200-16517000	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr9:16514200-16517200	Enhancers	NHDF-Ad	bronchial
37	chr9:16514400-16515200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr9:16514400-16519400	Weak transcription	Psoas Muscle	Psoas
39	chr9:16514600-16515200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:16514600-16516400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
41	chr9:16514800-16515200	Enhancers	NH-A	brain
42	chr9:16514800-16515600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
43	chr9:16514800-16517800	Enhancers	Duodenum Smooth Muscle	Duodenum
44	chr9:16514800-16518000	Enhancers	A549	lung
45	chr9:16514800-16518400	Enhancers	HUVEC	blood vessel
46	chr9:16515000-16515200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr9:16515000-16515200	Flanking Active TSS	Brain Anterior Caudate	brain
48	chr9:16515000-16515200	Enhancers	Fetal Kidney	kidney
49	chr9:16515000-16515200	Flanking Active TSS	Fetal Lung	lung
50	chr9:16515000-16515400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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