Variant report

Variant	rs9836804
Chromosome Location	chr3:51837850-51837851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs12631654	1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12639503	1.00[ASW][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1476290	0.85[TSI][hapmap]
rs1505404	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1983106	0.89[JPT][hapmap];1.00[TSI][hapmap]
rs2007607	0.89[JPT][hapmap];1.00[TSI][hapmap]
rs28481670	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4522758	1.00[CHB][hapmap]
rs56204016	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56285190	0.82[AMR][1000 genomes]
rs56998832	0.82[AMR][1000 genomes]
rs61257131	0.83[EUR][1000 genomes]
rs6762083	0.89[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6762371	1.00[ASW][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap]
rs6763197	0.89[JPT][hapmap]
rs6768073	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6786848	1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6795223	0.89[JPT][hapmap];1.00[TSI][hapmap]
rs6798175	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6798914	0.82[JPT][hapmap]
rs6802583	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs6805324	1.00[ASW][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6805941	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6809548	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73834762	0.92[ASN][1000 genomes]
rs7615151	0.86[ASW][hapmap];0.84[LWK][hapmap];0.81[MKK][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes]
rs7635409	0.83[ASN][1000 genomes]
rs7639080	0.88[ASN][1000 genomes]
rs7644969	0.89[JPT][hapmap];1.00[TSI][hapmap]
rs9826967	0.89[JPT][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9828077	1.00[AMR][1000 genomes]
rs9840833	0.88[ASN][1000 genomes]
rs9853511	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs9857964	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs986539	0.89[JPT][hapmap];1.00[TSI][hapmap]
rs9866552	1.00[ASW][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9869265	1.00[AMR][1000 genomes];1.00[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	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv520211	chr3:51772347-52166147	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	esv3416846	chr3:51781117-51888179	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1012847	chr3:51811062-52056727	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases
5	nsv536571	chr3:51811062-52056727	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	68 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51832800-51838400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr3:51833000-51838600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr3:51835200-51838000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:51836800-51838600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr3:51836800-51847600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:51837200-51838000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:51837800-51838000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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