Variant report

Variant	rs6786806
Chromosome Location	chr3:98042425-98042426
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1121369	0.86[ASN][1000 genomes]
rs1497546	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55800540	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55817294	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55836250	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55848866	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56115538	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56186058	0.96[EUR][1000 genomes]
rs56331876	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56347336	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56782837	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56908826	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58784693	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59191375	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59949657	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60249448	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60896887	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61196885	0.86[ASN][1000 genomes]
rs61310789	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61483213	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61578197	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267259	0.86[ASN][1000 genomes]
rs62267361	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267362	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267365	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62267366	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267368	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267373	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267374	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267375	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267376	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267377	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62267379	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62268282	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62268291	0.96[EUR][1000 genomes]
rs62268860	0.86[ASN][1000 genomes]
rs62268890	0.86[ASN][1000 genomes]
rs62268895	0.86[ASN][1000 genomes]
rs62268917	0.80[ASN][1000 genomes]
rs62268918	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62268930	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270682	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270685	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72937135	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7628554	1.00[AMR][1000 genomes]
rs7628736	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7640176	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][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	nsv869347	chr3:97742604-98051633	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv877209	chr3:97806616-98049409	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1004820	chr3:97852875-98169488	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv834773	chr3:97855362-98043888	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1000834	chr3:97859880-98095473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	esv1842860	chr3:97934241-98075543	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv1009918	chr3:97946030-98155450	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	esv34138	chr3:98034684-98045927	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv980018	chr3:98036829-98044703	Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Genic enhancers Bivalent/Poised TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98038800-98045200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:98041200-98043800	Active TSS	HUES64 Cell Line	embryonic stem cell
3	chr3:98041200-98045800	Active TSS	H9 Cell Line	embryonic stem cell
4	chr3:98041400-98042600	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr3:98041400-98044200	Active TSS	iPS-15b Cell Line	embryonic stem cell
6	chr3:98041400-98044400	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr3:98041400-98045600	Weak transcription	GM12878-XiMat	blood
8	chr3:98041600-98045000	Active TSS	H1 Cell Line	embryonic stem cell
9	chr3:98041800-98042600	Enhancers	HepG2	liver
10	chr3:98041800-98044400	Active TSS	iPS-20b Cell Line	embryonic stem cell
11	chr3:98042000-98043600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr3:98042000-98044400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:98042000-98044600	Active TSS	HUES6 Cell Line	embryonic stem cell
14	chr3:98042200-98044000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr3:98042400-98042600	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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