Variant report

Variant	rs1761783
Chromosome Location	chr6:92401171-92401172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr6:92401055-92401591	ECC-1	luminal epithelium:	n/a	n/a
2	MAX	chr6:92401072-92401547	ECC-1	luminal epithelium:	n/a	n/a
3	EP300	chr6:92401059-92401701	ECC-1	luminal epithelium:	n/a	n/a
4	CEBPB	chr6:92401103-92401423	ECC-1	luminal epithelium:	n/a	n/a
5	TEAD4	chr6:92401076-92401599	ECC-1	luminal epithelium:	n/a	n/a
6	REST	chr6:92401080-92401867	H1-neurons	neurons:	n/a	n/a
7	NR3C1	chr6:92401146-92401445	ECC-1	luminal epithelium:	n/a	n/a
8	GATA3	chr6:92401073-92401712	MCF-7	breast:	n/a	n/a
9	CEBPB	chr6:92401050-92401416	ECC-1	luminal epithelium:	n/a	n/a
10	GATA3	chr6:92401092-92401649	MCF-7	breast:	n/a	n/a
11	YY1	chr6:92401168-92401420	ECC-1	luminal epithelium:	n/a	n/a
12	NR3C1	chr6:92401149-92401436	ECC-1	luminal epithelium:	n/a	n/a
13	REST	chr6:92401154-92401796	H1-neurons	neurons:	n/a	n/a

Variant related genes	Relation type
CASC6	TF binding region

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

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs478120	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs478536	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs481555	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs482426	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs484288	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs484406	0.80[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs488091	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs504879	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs506122	0.96[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs508629	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs511077	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs512950	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs520631	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs524271	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs525943	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs533135	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs540315	0.80[CEU][hapmap];1.00[CHB][hapmap]
rs542101	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs548810	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs567888	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs570258	0.85[EUR][1000 genomes]
rs570400	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs571387	0.84[EUR][1000 genomes]
rs574724	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs578427	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs583239	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs599553	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs601701	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs605570	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs605594	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs609383	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs614298	0.85[EUR][1000 genomes]
rs615105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs633637	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs635450	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs636295	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs648475	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs650256	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs650804	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs652135	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs655846	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs658041	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs661782	0.80[CEU][hapmap];1.00[CHB][hapmap]
rs666390	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs673677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs676663	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs678605	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71556396	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017467	chr6:91802015-92417554	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
2	nsv538360	chr6:91802015-92417554	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1034981	chr6:92280070-92530848	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv1018145	chr6:92328392-92951562	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv428491	chr6:92329694-92474678	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1028736	chr6:92362109-92423792	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
7	nsv1067623	chr6:92383159-92939893	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv531366	chr6:92383159-92939893	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:92400800-92401600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links