Variant report

Variant	rs11878542
Chromosome Location	chr19:21441528-21441529
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10410362	1.00[CHB][hapmap];1.00[MEX][hapmap]
rs10424079	1.00[CHB][hapmap]
rs11879924	1.00[ASN][1000 genomes]
rs11880386	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11880436	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11880751	1.00[CHB][hapmap]
rs11880944	0.87[ASN][1000 genomes]
rs11880961	0.87[ASN][1000 genomes]
rs13382051	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1616365	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1645806	0.80[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1645808	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1762561	1.00[ASN][1000 genomes]
rs1762562	1.00[ASN][1000 genomes]
rs1762569	1.00[ASN][1000 genomes]
rs1762587	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1762590	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1762591	1.00[ASN][1000 genomes]
rs1781841	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1781845	1.00[ASN][1000 genomes]
rs1781849	0.87[ASN][1000 genomes]
rs1781854	1.00[ASN][1000 genomes]
rs1781859	1.00[ASN][1000 genomes]
rs1781890	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1963057	1.00[CHB][hapmap];1.00[MEX][hapmap]
rs1967182	1.00[CHB][hapmap]
rs2011379	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap]
rs2022405	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2022406	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2022408	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2359144	1.00[CHB][hapmap]
rs2454922	1.00[CHB][hapmap];1.00[MEX][hapmap]
rs2537687	1.00[ASN][1000 genomes]
rs2537693	1.00[ASN][1000 genomes]
rs2537695	1.00[ASN][1000 genomes]
rs2650844	1.00[CHB][hapmap]
rs2801860	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs2968031	1.00[CHB][hapmap];1.00[MEX][hapmap]
rs34524464	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4321312	1.00[CHB][hapmap]
rs4527149	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4630693	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4638726	1.00[CHB][hapmap]
rs58173485	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58183981	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60248819	0.87[ASN][1000 genomes]
rs61530624	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7255560	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7256181	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7256594	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7257218	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7259408	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7259633	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7259926	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7260065	1.00[CHB][hapmap]
rs73531731	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531734	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531741	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531743	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531744	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531745	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531749	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531750	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531754	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531767	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531771	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531774	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531776	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73531778	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73531780	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73533965	1.00[ASN][1000 genomes]
rs73533967	0.89[ASN][1000 genomes]
rs73533969	1.00[ASN][1000 genomes]
rs73533974	1.00[ASN][1000 genomes]
rs73533976	1.00[ASN][1000 genomes]
rs73533977	1.00[ASN][1000 genomes]
rs73536001	0.87[ASN][1000 genomes]
rs73549609	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73549628	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8104698	1.00[ASN][1000 genomes]
rs8105173	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3385528	chr19:21030777-21495566	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3518033	chr19:21278465-21747567	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv3518034	chr19:21278465-21747567	ZNF genes & repeats Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv3414204	chr19:21301761-21839451	ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
5	nsv911414	chr19:21355473-21454672	Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv578950	chr19:21388995-21477431	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv911415	chr19:21388995-21487170	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv911416	chr19:21388995-21548211	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv911417	chr19:21388995-21564001	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	nsv911418	chr19:21390608-21454672	ZNF genes & repeats Genic enhancers Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv911419	chr19:21391844-21487170	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv978788	chr19:21403145-21458328	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21436800-21444200	Weak transcription	Ovary	ovary

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