Variant report

Variant	rs10962540
Chromosome Location	chr9:16682689-16682690
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10810587	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10962543	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs10962545	0.84[EUR][1000 genomes]
rs12375507	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs72704100	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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	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
6	esv2758627	chr9:16641966-16809203	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS 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
7	esv2759673	chr9:16641966-16809203	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription 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	10 gene(s)	inside rSNPs	diseases
8	nsv892649	chr9:16677221-16761597	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv1030598	chr9:16680138-16696510	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16665000-16704400	Weak transcription	Aorta	Aorta
2	chr9:16679600-16683400	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr9:16679600-16693600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr9:16679800-16689400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr9:16679800-16704000	Weak transcription	HSMMtube	muscle
6	chr9:16680000-16688800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:16680000-16688800	Weak transcription	Fetal Muscle Leg	muscle
8	chr9:16680000-16704600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:16680600-16684200	Enhancers	Colon Smooth Muscle	Colon
10	chr9:16680800-16683600	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr9:16681200-16684600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr9:16681400-16684000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:16681600-16683200	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr9:16681600-16685000	Weak transcription	NH-A	brain
15	chr9:16681600-16687400	Weak transcription	HSMM	muscle
16	chr9:16681600-16687800	Weak transcription	HUVEC	blood vessel
17	chr9:16681800-16682800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr9:16681800-16683000	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr9:16681800-16683800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr9:16681800-16689400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr9:16682000-16682800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr9:16682000-16683200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr9:16682000-16684400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:16682000-16684400	Enhancers	NHDF-Ad	bronchial
25	chr9:16682000-16685200	Weak transcription	NHLF	lung
26	chr9:16682000-16687400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:16682000-16688800	Weak transcription	Fetal Intestine Large	intestine
28	chr9:16682200-16682800	Enhancers	Pancreatic Islets	Pancreatic Islet
29	chr9:16682200-16683400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr9:16682200-16688800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr9:16682200-16689400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr9:16682400-16683200	Enhancers	Fetal Lung	lung
33	chr9:16682400-16683200	Enhancers	A549	lung
34	chr9:16682400-16684400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr9:16682600-16683400	Enhancers	Stomach Smooth Muscle	stomach
36	chr9:16682600-16684000	Enhancers	Rectal Smooth Muscle	rectum
37	chr9:16682600-16684400	Enhancers	Osteobl	bone
38	chr9:16682600-16687400	Weak transcription	Ovary	ovary
39	chr9:16682600-16689200	Weak transcription	Fetal Stomach	stomach

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