Variant report

Variant	rs6596743
Chromosome Location	chr5:97678524-97678525
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10035546	0.83[EUR][1000 genomes]
rs10036788	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10036839	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10050404	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10050543	0.80[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10054643	0.96[EUR][1000 genomes]
rs10073933	0.89[AMR][1000 genomes]
rs10074663	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11950953	0.96[EUR][1000 genomes]
rs11953877	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11953894	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11954911	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11955115	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11955987	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1378443	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1378445	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1455424	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1455425	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17165878	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2368550	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4703354	0.83[EUR][1000 genomes]
rs59423561	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60702807	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61740530	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62369875	0.87[EUR][1000 genomes]
rs6596727	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6596729	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6596748	0.96[EUR][1000 genomes]
rs6862206	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6863762	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6871138	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6872831	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6877032	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6882939	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6885953	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6887168	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6889222	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6890493	0.81[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs73159220	0.96[EUR][1000 genomes]
rs73159222	0.96[EUR][1000 genomes]
rs73159223	0.96[EUR][1000 genomes]
rs73159226	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7714163	0.88[AMR][1000 genomes]
rs7718848	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7728104	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882407	chr5:97553255-97783046	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv882408	chr5:97616089-97836794	Enhancers Strong transcription ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv830419	chr5:97653713-97829079	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97675400-97678800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:97676400-97678600	Enhancers	Osteobl	bone
3	chr5:97676400-97678800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr5:97676800-97678600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr5:97677600-97678600	Enhancers	NHDF-Ad	bronchial
6	chr5:97678000-97678800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr5:97678200-97685000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr5:97678200-97685000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr5:97678200-97685000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links