Variant report

Variant	rs10962511
Chromosome Location	chr9:16613687-16613688
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10116857	1.00[CEU][hapmap]
rs10117448	1.00[CEU][hapmap]
rs10123480	1.00[CEU][hapmap]
rs10123558	0.82[CEU][hapmap]
rs10511622	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10733312	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs10738437	0.82[CEU][hapmap]
rs10738439	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.91[MEX][hapmap];0.86[MKK][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10756763	1.00[CEU][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10810576	0.82[CEU][hapmap]
rs10962488	0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10962492	0.82[CEU][hapmap]
rs10962493	1.00[CEU][hapmap]
rs10962494	0.82[CEU][hapmap]
rs12000426	0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12002673	0.83[ASW][hapmap];1.00[CEU][hapmap]
rs12004304	0.83[AFR][1000 genomes]
rs12337676	1.00[CEU][hapmap]
rs12338548	1.00[CEU][hapmap];0.92[MEX][hapmap];0.80[AMR][1000 genomes]
rs12350242	1.00[CEU][hapmap]
rs12350853	0.82[CEU][hapmap];0.81[GIH][hapmap];0.92[MEX][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12352543	1.00[CEU][hapmap]
rs1337391	1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[ASN][1000 genomes]
rs1337393	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1337400	1.00[CEU][hapmap]
rs1415473	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1415474	1.00[CEU][hapmap]
rs1415476	1.00[CEU][hapmap]
rs1807023	0.80[AMR][1000 genomes]
rs1927616	1.00[CEU][hapmap];0.80[AMR][1000 genomes]
rs1927617	1.00[CEU][hapmap]
rs1927618	0.82[CEU][hapmap]
rs1927626	1.00[CEU][hapmap]
rs1952345	1.00[CEU][hapmap]
rs1952346	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs2065937	0.80[AFR][1000 genomes]
rs2382808	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2382809	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2382810	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28414647	0.80[AMR][1000 genomes]
rs28483319	0.80[AMR][1000 genomes]
rs28593297	0.80[AMR][1000 genomes]
rs28602416	0.80[AMR][1000 genomes]
rs28714603	0.80[AMR][1000 genomes]
rs28733737	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2891072	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4466493	0.81[AFR][1000 genomes]
rs56170891	0.82[AMR][1000 genomes]
rs6475059	1.00[CEU][hapmap];0.84[GIH][hapmap];0.92[MEX][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6475060	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs6475062	1.00[CEU][hapmap]
rs7021199	0.80[AMR][1000 genomes]
rs7022813	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7030387	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7035791	0.80[AMR][1000 genomes]
rs7048399	0.81[EUR][1000 genomes]
rs7049082	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs725011	1.00[CEU][hapmap]
rs7350234	1.00[CEU][hapmap]
rs7470623	1.00[CEU][hapmap]
rs7850123	0.82[CEU][hapmap]
rs7856477	0.83[ASW][hapmap];1.00[CEU][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7858025	0.82[CEU][hapmap];0.80[AMR][1000 genomes]
rs7863885	0.82[CEU][hapmap]
rs7870380	1.00[CEU][hapmap]
rs7872747	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7872838	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs943744	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs943745	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv430000	chr9:16603483-16671045	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16606200-16615000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr9:16607000-16618400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:16608400-16618600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr9:16609600-16618000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr9:16609600-16619800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr9:16610200-16614400	Enhancers	NHDF-Ad	bronchial
7	chr9:16611000-16613800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr9:16611200-16614200	Enhancers	NHLF	lung
9	chr9:16611200-16615200	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr9:16611200-16618000	Weak transcription	Fetal Stomach	stomach
11	chr9:16611400-16615600	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr9:16611400-16626400	Weak transcription	Aorta	Aorta
13	chr9:16611600-16614200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:16611600-16618800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr9:16611800-16619000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr9:16611800-16619600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr9:16612400-16613800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr9:16612600-16614000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr9:16612600-16614600	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr9:16612600-16618400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr9:16612800-16613800	Enhancers	Ovary	ovary
22	chr9:16612800-16618800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr9:16613000-16617800	Weak transcription	Colon Smooth Muscle	Colon
24	chr9:16613000-16619600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr9:16613000-16624800	Weak transcription	NH-A	brain
26	chr9:16613200-16614600	Weak transcription	HUVEC	blood vessel
27	chr9:16613200-16618400	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr9:16613200-16624800	Weak transcription	A549	lung
29	chr9:16613400-16619000	Weak transcription	Osteobl	bone
30	chr9:16613600-16614000	Enhancers	HSMM	muscle
31	chr9:16613600-16614000	Enhancers	HSMMtube	muscle
32	chr9:16613600-16614400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:16613600-16615400	Enhancers	ES-I3 Cell Line	embryonic stem cell

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