Variant report

Variant	rs16834596
Chromosome Location	chr1:152813011-152813012
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	GATA3	chr1:152813002-152813216	SH-SY5Y	brain:	n/a	n/a

Variant related genes	Relation type
LCE6A	TF binding region

Extended variants
information (count: 109 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10399761	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10399933	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10399958	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11205123	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11205124	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11205125	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11800110	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11802167	1.00[EUR][1000 genomes]
rs11802181	1.00[EUR][1000 genomes]
rs11802222	1.00[EUR][1000 genomes]
rs11804354	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11804404	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11804419	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11805389	1.00[EUR][1000 genomes]
rs11805896	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11807457	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11807486	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11807888	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11809092	1.00[CEU][hapmap]
rs11809110	1.00[EUR][1000 genomes]
rs11809520	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11811489	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11811567	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12073467	1.00[CEU][hapmap]
rs12081164	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12083273	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12403761	1.00[EUR][1000 genomes]
rs16834574	1.00[CEU][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16834582	1.00[CEU][hapmap]
rs16834595	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs16834611	1.00[CEU][hapmap]
rs16834716	1.00[EUR][1000 genomes]
rs16834719	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16834732	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs16834736	1.00[EUR][1000 genomes]
rs16834740	1.00[EUR][1000 genomes]
rs2879460	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35920563	1.00[EUR][1000 genomes]
rs4378153	1.00[CEU][hapmap]
rs57938862	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57942491	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58015557	1.00[EUR][1000 genomes]
rs58272471	0.85[AMR][1000 genomes]
rs58437291	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58540020	1.00[EUR][1000 genomes]
rs58862899	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs59008684	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59343658	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59610990	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59649412	1.00[EUR][1000 genomes]
rs60459088	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60513675	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61095410	1.00[EUR][1000 genomes]
rs61744935	1.00[EUR][1000 genomes]
rs61744941	1.00[EUR][1000 genomes]
rs6659570	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6659675	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6665277	1.00[EUR][1000 genomes]
rs6668146	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6670654	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6673420	1.00[CEU][hapmap]
rs6674372	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs6684782	1.00[CEU][hapmap]
rs6693942	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6699386	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs6703505	1.00[CEU][hapmap]
rs73006504	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006519	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006523	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006525	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006526	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006527	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006537	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006539	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006549	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006550	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006559	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006561	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006562	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006564	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006565	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006567	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006568	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006569	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006570	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006571	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006574	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73006575	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73008506	1.00[EUR][1000 genomes]
rs73021110	1.00[EUR][1000 genomes]
rs73021114	1.00[EUR][1000 genomes]
rs73021163	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73021185	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73023030	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7530135	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757755	chr1:152472839-152898153	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	esv2758970	chr1:152472839-152898153	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv427786	chr1:152572990-152898153	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv1013433	chr1:152619305-153262215	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
5	nsv535170	chr1:152619305-153262215	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
6	nsv1001834	chr1:152648853-153279143	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
7	nsv428521	chr1:152663153-152831578	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv547899	chr1:152672005-153245082	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
9	nsv999918	chr1:152749733-152861866	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv1009885	chr1:152762750-152851273	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv1010576	chr1:152791716-152827652	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	nsv1000159	chr1:152809514-152853766	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv1008447	chr1:152811171-152853748	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	esv2761937	chr1:152811183-152853760	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 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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