Variant report

Variant	rs9959209
Chromosome Location	chr18:24744646-24744647
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs16943240	1.00[AMR][1000 genomes]
rs2339259	0.81[ASN][1000 genomes]
rs28374128	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28377196	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28407882	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28421022	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28422861	0.91[ASN][1000 genomes]
rs28430781	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28441579	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28447060	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28527345	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28540832	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28592609	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28607703	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28625571	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28626613	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28628505	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28636962	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28638047	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28655160	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28658184	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28659873	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28666617	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28669309	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28675069	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28689713	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28690572	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs28693844	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28713375	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28774693	0.81[ASN][1000 genomes]
rs62082922	0.91[ASN][1000 genomes]
rs73404849	0.81[ASN][1000 genomes]
rs9944690	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9946111	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9947740	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9947754	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9948063	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9948516	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9948801	1.00[AMR][1000 genomes]
rs9948956	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9949069	1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9949945	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9950392	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9950774	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9950985	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9951105	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9951527	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9951666	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9951886	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9952545	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9952700	1.00[AMR][1000 genomes]
rs9953272	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9954010	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9955379	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9955513	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9955608	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9955617	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9957189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9957834	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9958309	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9958520	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9958672	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9958959	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9959230	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9959270	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9959345	0.81[ASN][1000 genomes]
rs9959436	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9959629	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9959749	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9960539	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9962767	0.81[ASN][1000 genomes]
rs9963374	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9963925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9965760	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9966121	1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067103	chr18:24524011-24760469	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv543668	chr18:24524011-24760469	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv909473	chr18:24655235-24792075	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv909474	chr18:24683823-24832023	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv909475	chr18:24687324-24776226	Bivalent Enhancer Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv530515	chr18:24704459-24883897	Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv909476	chr18:24722839-24779601	Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	esv1810563	chr18:24727747-24773141	Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	esv3337986	chr18:24737003-24758526	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:24743400-24745400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr18:24743600-24745600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
3	chr18:24744200-24755200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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