Variant report

Variant	rs10962645
Chromosome Location	chr9:16863543-16863544
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10962638	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962642	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10962647	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10962648	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10962649	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962652	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10962653	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10962656	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10962658	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10962659	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11788047	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11789875	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11792249	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12379687	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62541877	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62541878	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62541879	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62541920	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62541922	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62541923	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62541926	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62543561	0.83[AFR][1000 genomes]
rs62543578	0.83[AFR][1000 genomes]
rs62543579	0.83[AFR][1000 genomes]
rs62543581	0.83[AFR][1000 genomes]
rs62543582	0.83[AFR][1000 genomes]
rs62543583	0.83[AFR][1000 genomes]
rs62543584	0.83[AFR][1000 genomes]
rs62543585	0.83[AFR][1000 genomes]
rs72713890	0.83[AFR][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	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
4	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
5	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
6	esv1814340	chr9:16851678-16865699	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16829800-16864200	Weak transcription	NH-A	brain
2	chr9:16831200-16864400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr9:16833800-16863800	Weak transcription	NHLF	lung
4	chr9:16836200-16864400	Weak transcription	NHDF-Ad	bronchial
5	chr9:16853000-16864400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:16853200-16863800	Weak transcription	Osteobl	bone
7	chr9:16853400-16864400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:16854000-16863800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:16855800-16864600	Weak transcription	Psoas Muscle	Psoas
10	chr9:16858400-16864400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:16858400-16864400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr9:16859800-16864400	Weak transcription	HSMM	muscle
13	chr9:16860000-16864400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr9:16860800-16867800	Weak transcription	Fetal Muscle Trunk	muscle
15	chr9:16861000-16864400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr9:16862200-16864400	Enhancers	Colon Smooth Muscle	Colon
17	chr9:16862400-16864600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr9:16862400-16868000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr9:16863000-16863800	Enhancers	Ovary	ovary
20	chr9:16863200-16863600	Enhancers	Fetal Stomach	stomach
21	chr9:16863200-16864200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:16863200-16864400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr9:16863400-16863600	Enhancers	Fetal Lung	lung
24	chr9:16863400-16864400	Enhancers	Rectal Smooth Muscle	rectum
25	chr9:16863400-16864400	Weak transcription	Stomach Smooth Muscle	stomach
26	chr9:16863400-16864600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:16863400-16864600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links