Variant report

Variant	rs9598169
Chromosome Location	chr13:61361347-61361348
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	CEBPB	chr13:61361259-61361594	Hela-S3	cervix:	n/a	n/a
2	NFIC	chr13:61361118-61361745	ECC-1	luminal epithelium:	n/a	n/a
3	FOS	chr13:61361296-61361588	MCF10A-Er-Src	breast:	n/a	n/a
4	FOS	chr13:61361233-61361627	MCF10A-Er-Src	breast:	n/a	n/a
5	CEBPB	chr13:61361279-61361584	HepG2	liver:	n/a	n/a
6	FOS	chr13:61361242-61361627	MCF10A-Er-Src	breast:	n/a	n/a
7	CEBPB	chr13:61361169-61361614	ECC-1	luminal epithelium:	n/a	n/a
8	STAT3	chr13:61361232-61361432	MCF10A-Er-Src	breast:	n/a	chr13:61361335-61361346
9	STAT3	chr13:61361131-61361492	MCF10A-Er-Src	breast:	n/a	chr13:61361335-61361346
10	STAT3	chr13:61361253-61361513	MCF10A-Er-Src	breast:	n/a	chr13:61361335-61361346
11	STAT3	chr13:61361171-61361519	MCF10A-Er-Src	breast:	n/a	chr13:61361335-61361346
12	CEBPB	chr13:61361234-61361617	H1-hESC	embryonic stem cell:	n/a	n/a
13	CEBPB	chr13:61361158-61361658	ECC-1	luminal epithelium:	n/a	n/a
14	STAT3	chr13:61361266-61361513	MCF10A-Er-Src	breast:	n/a	chr13:61361335-61361346
15	FOS	chr13:61361255-61361531	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
RNY3P5	TF binding region

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10162120	0.81[ASN][1000 genomes]
rs1028071	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs11838990	0.99[ASN][1000 genomes]
rs1399140	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1399141	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1399142	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1514158	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1514168	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1855191	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1999517	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2090087	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2184070	0.82[ASN][1000 genomes]
rs2203366	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3106554	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3106555	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3106556	0.83[ASN][1000 genomes]
rs3119864	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3119879	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3119880	0.83[ASN][1000 genomes]
rs3119882	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3119883	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3119884	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3120232	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3127026	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3127027	0.83[ASN][1000 genomes]
rs3127029	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3127030	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3967110	0.83[ASN][1000 genomes]
rs4886268	0.98[ASN][1000 genomes]
rs4886269	0.97[ASN][1000 genomes]
rs4886275	0.99[ASN][1000 genomes]
rs73219646	0.93[ASN][1000 genomes]
rs9285228	1.00[ASN][1000 genomes]
rs9317135	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9317136	0.83[ASN][1000 genomes]
rs9317137	0.97[ASN][1000 genomes]
rs9528218	1.00[ASN][1000 genomes]
rs9528220	0.99[ASN][1000 genomes]
rs9538903	0.83[ASN][1000 genomes]
rs9538904	0.82[ASN][1000 genomes]
rs9538922	1.00[ASN][1000 genomes]
rs9538926	0.80[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	nsv817223	chr13:60623429-61453435	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	nsv900241	chr13:61217896-61368021	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv832623	chr13:61303818-61468576	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1037954	chr13:61319533-61395907	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv561866	chr13:61328813-61388794	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:61360200-61361800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr13:61360200-61363000	Enhancers	NHEK	skin
3	chr13:61360400-61361600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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