Variant report

Variant	rs548810
Chromosome Location	chr6:92403670-92403671
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	FOS	chr6:92403650-92404122	MCF10A-Er-Src	breast:	n/a	chr6:92403832-92403840 chr6:92403833-92403840 chr6:92403832-92403841 chr6:92403828-92403839
2	FOS	chr6:92403644-92404128	MCF10A-Er-Src	breast:	n/a	chr6:92403832-92403840 chr6:92403833-92403840 chr6:92403832-92403841 chr6:92403828-92403839
3	FOS	chr6:92403615-92404347	MCF10A-Er-Src	breast:	n/a	chr6:92403832-92403840 chr6:92403833-92403840 chr6:92403832-92403841 chr6:92403828-92403839
4	TCF7L2	chr6:92403644-92404285	HCT-116	colon:	n/a	chr6:92403832-92403841
5	FOS	chr6:92403643-92404312	MCF10A-Er-Src	breast:	n/a	chr6:92403832-92403840 chr6:92403833-92403840 chr6:92403832-92403841 chr6:92403828-92403839
6	RPC155	chr6:92403247-92403971	Hela-S3	cervix:	n/a	n/a
7	MYC	chr6:92403664-92404196	MCF10A-Er-Src	breast:	n/a	chr6:92403832-92403841 chr6:92403831-92403840

Variant related genes	Relation type
CASC6	TF binding region

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1761783	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs478120	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs478536	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs481555	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs482426	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs484288	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs484406	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs488091	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs504879	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs506122	0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs508629	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs511077	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs512950	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs520631	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs524271	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs525943	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs533135	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs542101	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs567888	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs570258	0.81[EUR][1000 genomes]
rs571387	0.80[EUR][1000 genomes]
rs574724	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs578427	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs583239	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs599553	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs601701	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs605570	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs609383	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs614298	0.81[EUR][1000 genomes]
rs615105	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs633637	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs635450	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs636295	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs648475	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs650256	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs650804	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs652135	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs655846	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs658041	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs666390	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs673677	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs676663	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs678605	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71556396	0.94[EUR][1000 genomes];0.97[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:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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