Variant report

Variant	rs11923748
Chromosome Location	chr3:28547832-28547833
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs11915164	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11915400	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11916224	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs11918088	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11918573	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11919446	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11923033	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11923095	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11926821	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11926954	1.00[AMR][1000 genomes]
rs11927699	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11929456	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55634652	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55650840	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55758484	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55817728	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55861012	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55934504	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs55962685	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56082224	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56196031	0.85[AMR][1000 genomes]
rs56199335	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56361125	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57400334	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57850842	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58272663	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58279309	0.80[AFR][1000 genomes]
rs59066362	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59284522	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs59337423	0.85[AMR][1000 genomes]
rs59962663	1.00[AMR][1000 genomes]
rs60355399	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60984094	0.83[AMR][1000 genomes]
rs61588415	1.00[EUR][1000 genomes]
rs6794482	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6800120	1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6800367	1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6804419	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73822639	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73822644	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73822646	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73822647	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823975	0.83[AMR][1000 genomes]
rs73823977	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823978	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823979	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823980	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823981	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823983	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823986	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823988	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823989	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823990	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823991	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823992	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823994	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823995	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823996	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823997	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823998	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73823999	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73824000	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73824001	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73825125	1.00[EUR][1000 genomes]
rs73825129	1.00[EUR][1000 genomes]
rs73825132	1.00[EUR][1000 genomes]
rs73825133	1.00[EUR][1000 genomes]
rs73825137	1.00[EUR][1000 genomes]
rs73825138	1.00[EUR][1000 genomes]
rs73825145	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825155	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825158	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825159	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825160	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73825164	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73826003	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826004	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826005	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826006	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826007	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826008	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826009	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826010	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826012	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826013	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826014	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826015	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826017	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73826021	0.85[AMR][1000 genomes]
rs73826022	0.85[AMR][1000 genomes]
rs73826024	1.00[AMR][1000 genomes]
rs73826025	0.85[AMR][1000 genomes]
rs7620049	1.00[AMR][1000 genomes]
rs7627778	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7628073	1.00[EUR][1000 genomes]
rs7649677	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv876650	chr3:28427029-28613602	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1015015	chr3:28461972-28728494	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv916364	chr3:28468275-29146280	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv590010	chr3:28469830-28727214	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1004457	chr3:28541307-28595311	Strong transcription Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28514800-28575800	Weak transcription	Ovary	ovary
2	chr3:28544400-28549400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:28546000-28548000	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr3:28546200-28548000	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr3:28546400-28548000	Enhancers	Brain Germinal Matrix	brain
6	chr3:28546600-28548400	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr3:28546800-28551800	Weak transcription	Psoas Muscle	Psoas
8	chr3:28547200-28559800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:28547800-28548400	Enhancers	iPS-15b Cell Line	embryonic stem cell

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