Variant report

Variant	rs6771856
Chromosome Location	chr3:89815291-89815292
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10511146	0.84[EUR][1000 genomes]
rs11915486	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917453	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11929661	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12636191	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1520592	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1520593	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1568413	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1607760	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1607761	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1607762	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17027205	0.84[EUR][1000 genomes]
rs17027215	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17027311	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17027312	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1818724	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1915731	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1915732	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1915740	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1949586	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2030397	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3946558	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4413330	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4435660	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55976185	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56095793	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56298936	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57546328	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57874278	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59117096	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60015775	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6551423	0.84[EUR][1000 genomes]
rs6551428	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6766520	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6768215	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6770859	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6771070	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6772248	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6773084	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6780420	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786656	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6787938	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6788614	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6788646	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6797123	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6799963	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6803279	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6808885	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6809495	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72912075	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72912076	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72912079	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72914013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72914018	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72914026	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72914031	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72914033	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72914067	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72915889	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73846221	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73846224	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73846254	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73846279	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73847938	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7611484	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7612414	0.82[EUR][1000 genomes]
rs7621734	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7622082	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7626879	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7632510	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7633240	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7641424	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7652965	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653338	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7653471	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9681514	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1008018	chr3:89382031-90254063	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv536639	chr3:89382031-90254063	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1010932	chr3:89424428-90192503	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1010021	chr3:89521983-90141988	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv530024	chr3:89548440-90304841	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv869889	chr3:89653238-90087372	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1013502	chr3:89670525-89915342	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv536641	chr3:89670525-89915342	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv834761	chr3:89718508-89877335	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1005444	chr3:89803641-90030755	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89809600-89815800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:89814400-89815400	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr3:89814600-89815400	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr3:89814600-89815400	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr3:89814600-89832600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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