Variant report

Variant	rs9859820
Chromosome Location	chr3:51838767-51838768
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs13325762	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1857801	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28776255	0.88[AFR][1000 genomes]
rs61011489	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61048512	0.88[AFR][1000 genomes]
rs61299098	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6781310	0.82[AFR][1000 genomes]
rs6789601	0.81[YRI][hapmap];0.84[AFR][1000 genomes]
rs6792143	0.88[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6803994	0.80[AFR][1000 genomes]
rs6806593	0.84[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6806812	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7623760	0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs7632944	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs9820804	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9822619	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9822994	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9823975	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9831594	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9839703	0.87[AFR][1000 genomes]
rs9840747	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9846102	0.88[AFR][1000 genomes]
rs9856180	0.88[YRI][hapmap];0.88[AFR][1000 genomes]
rs9858279	0.84[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9863019	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9877178	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878564	0.88[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9880623	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9880631	0.85[AFR][1000 genomes];1.00[AMR][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:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51836800-51847600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:51838000-51838800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:51838000-51843600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:51838400-51839000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:51838400-51839200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:51838400-51839400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr3:51838600-51838800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:51838600-51839200	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr3:51838600-51839400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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