Variant report

Variant	rs59518469
Chromosome Location	chr3:97979027-97979028
allele	C/T
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	CTCF	chr3:97978980-97979130	A549	lung:	n/a	n/a
2	POLR2A	chr3:97978932-97979301	GM12878	blood:	n/a	n/a
3	CTCF	chr3:97978940-97979090	GM12866	blood:	n/a	n/a
4	CTCF	chr3:97978900-97979050	Caco-2	colon:	n/a	n/a
5	CTCF	chr3:97978900-97979050	GM12870	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:97978738..97980851-chr3:98012803..98015207,2	MCF-7	breast:
2	chr3:97977847..97980147-chr3:97980537..97982058,2	MCF-7	breast:

Variant related genes	Relation type
OR5H6	TF binding region

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1497547	1.00[EUR][1000 genomes]
rs1603598	1.00[AMR][1000 genomes]
rs16839491	1.00[EUR][1000 genomes]
rs1846079	1.00[AMR][1000 genomes]
rs1846080	1.00[AMR][1000 genomes]
rs1846084	1.00[EUR][1000 genomes]
rs1909001	1.00[EUR][1000 genomes]
rs1909002	1.00[EUR][1000 genomes]
rs4358332	1.00[EUR][1000 genomes]
rs4582089	1.00[AMR][1000 genomes]
rs55696575	1.00[AMR][1000 genomes]
rs55985096	1.00[AMR][1000 genomes]
rs56731928	1.00[EUR][1000 genomes]
rs57361363	1.00[AMR][1000 genomes]
rs58415495	1.00[AMR][1000 genomes]
rs59124064	1.00[EUR][1000 genomes]
rs59403104	1.00[EUR][1000 genomes]
rs59879616	1.00[EUR][1000 genomes]
rs60154921	1.00[AMR][1000 genomes]
rs60579668	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60579974	1.00[AMR][1000 genomes]
rs60903056	1.00[EUR][1000 genomes]
rs6786574	1.00[EUR][1000 genomes]
rs72922848	1.00[EUR][1000 genomes]
rs72931085	1.00[EUR][1000 genomes]
rs72932838	1.00[EUR][1000 genomes]
rs72932843	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72932901	1.00[EUR][1000 genomes]
rs72934924	1.00[EUR][1000 genomes]
rs72934931	1.00[EUR][1000 genomes]
rs72934978	1.00[EUR][1000 genomes]
rs72934981	1.00[EUR][1000 genomes]
rs72937126	1.00[EUR][1000 genomes]
rs73854543	1.00[EUR][1000 genomes]
rs73854599	1.00[AMR][1000 genomes]
rs73854600	1.00[AMR][1000 genomes]
rs73854601	1.00[AMR][1000 genomes]
rs73854602	1.00[AMR][1000 genomes]
rs73854623	1.00[AMR][1000 genomes]
rs73854624	1.00[AMR][1000 genomes]
rs73854625	1.00[AMR][1000 genomes]
rs73854626	1.00[AMR][1000 genomes]
rs73854627	1.00[AMR][1000 genomes]
rs73854628	1.00[AMR][1000 genomes]
rs73856504	1.00[AMR][1000 genomes]
rs73856505	1.00[AMR][1000 genomes]
rs73856506	1.00[AMR][1000 genomes]
rs73856507	1.00[AMR][1000 genomes]
rs73856508	1.00[AMR][1000 genomes]
rs73856509	1.00[AMR][1000 genomes]
rs73856510	1.00[AMR][1000 genomes]
rs73856517	1.00[AMR][1000 genomes]
rs73856518	1.00[AMR][1000 genomes]
rs73856520	1.00[AMR][1000 genomes]
rs73856521	1.00[AMR][1000 genomes]
rs73856522	1.00[AMR][1000 genomes]
rs73856523	1.00[AMR][1000 genomes]
rs73856524	1.00[AMR][1000 genomes]
rs73856525	1.00[AMR][1000 genomes]
rs73856527	1.00[AMR][1000 genomes]
rs73856528	1.00[AMR][1000 genomes]
rs73856530	1.00[AMR][1000 genomes]
rs73856532	1.00[AMR][1000 genomes]
rs73856533	1.00[AMR][1000 genomes]
rs73856534	1.00[AMR][1000 genomes]
rs73856536	1.00[AMR][1000 genomes]
rs73856538	1.00[AMR][1000 genomes]
rs73856540	1.00[AMR][1000 genomes]
rs73856542	1.00[AMR][1000 genomes]
rs73856546	1.00[AMR][1000 genomes]
rs73856547	1.00[AMR][1000 genomes]
rs73856548	1.00[AMR][1000 genomes]
rs73856550	1.00[AMR][1000 genomes]
rs73856553	1.00[AMR][1000 genomes]
rs73856569	1.00[AMR][1000 genomes]
rs73856574	1.00[AMR][1000 genomes]
rs73857409	1.00[AMR][1000 genomes]
rs73857410	1.00[AMR][1000 genomes]
rs73857411	1.00[AMR][1000 genomes]
rs73857413	1.00[AMR][1000 genomes]
rs73857414	1.00[AMR][1000 genomes]
rs73857415	1.00[AMR][1000 genomes]
rs7432818	1.00[AMR][1000 genomes]
rs7632428	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869347	chr3:97742604-98051633	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv877209	chr3:97806616-98049409	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv963576	chr3:97825434-98041343	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1004820	chr3:97852875-98169488	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv834773	chr3:97855362-98043888	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1000834	chr3:97859880-98095473	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv877210	chr3:97866177-97992964	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv432462	chr3:97918267-98001710	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv877212	chr3:97931105-98033400	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	esv1842860	chr3:97934241-98075543	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv1004762	chr3:97935701-98000227	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv1008569	chr3:97937168-97983117	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv1009918	chr3:97946030-98155450	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
14	nsv965340	chr3:97957002-97980365	Weak transcription Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
15	esv3444875	chr3:97957818-97983549	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv877213	chr3:97973670-97992964	Enhancers ZNF genes & repeats Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv3399236	chr3:97977397-97988329	Inactive region	TF binding region CpG island Chromatin interactive region	1 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
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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