Variant report

Variant	rs10401428
Chromosome Location	chr19:43065396-43065397
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10401178	1.00[EUR][1000 genomes]
rs10403065	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10404589	1.00[EUR][1000 genomes]
rs10405037	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10405152	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs10405410	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10405942	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10412074	1.00[EUR][1000 genomes]
rs10412173	0.85[AFR][1000 genomes]
rs10412594	1.00[EUR][1000 genomes]
rs10415284	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10416108	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10418997	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10419543	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10419561	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10420773	1.00[EUR][1000 genomes]
rs10422191	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10423370	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10424206	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10425199	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10425666	1.00[EUR][1000 genomes]
rs10426304	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11879033	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11880554	1.00[EUR][1000 genomes]
rs11880876	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11881583	0.87[AMR][1000 genomes]
rs11882225	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11882701	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs13343840	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13345272	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13346522	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16975799	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs16975862	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2051832	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2051833	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28425201	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28473486	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28588100	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28602626	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28625452	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs28635141	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28660279	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs41348545	1.00[EUR][1000 genomes]
rs41381546	1.00[EUR][1000 genomes]
rs41421250	1.00[EUR][1000 genomes]
rs60747186	0.83[EUR][1000 genomes]
rs61388144	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6509015	1.00[EUR][1000 genomes]
rs6509019	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7247278	1.00[EUR][1000 genomes]
rs7250501	1.00[EUR][1000 genomes]
rs7252874	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs7253634	1.00[EUR][1000 genomes]
rs7255271	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7256226	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7256850	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7259335	1.00[EUR][1000 genomes]
rs73558492	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73558498	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73560408	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8104731	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs8105525	1.00[EUR][1000 genomes]
rs8106836	1.00[EUR][1000 genomes]
rs8108992	1.00[EUR][1000 genomes]
rs8110904	1.00[EUR][1000 genomes]
rs8111171	1.00[EUR][1000 genomes]
rs8112593	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8112915	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8113154	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8113448	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9749434	1.00[EUR][1000 genomes]
rs9917002	0.83[AFR][1000 genomes];0.93[AMR][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	nsv526186	chr19:42676481-43203507	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
2	esv2422471	chr19:42733141-43669485	Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	70 gene(s)	inside rSNPs	diseases
3	esv2422468	chr19:42991289-43669027	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1057390	chr19:43003323-43173028	Enhancers Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv482597	chr19:43037214-43222644	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2758501	chr19:43042747-43899053	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
7	esv2758763	chr19:43042747-43899053	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
8	nsv428023	chr19:43042747-43899053	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
9	esv2422227	chr19:43059426-43669485	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:43050600-43067800	Weak transcription	Right Atrium	heart
2	chr19:43060200-43067600	Weak transcription	Adipose Nuclei	Adipose
3	chr19:43064000-43066200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:43064200-43066400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr19:43064400-43065800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr19:43064600-43065800	Bivalent Enhancer	HepG2	liver
7	chr19:43064600-43067600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr19:43064800-43070600	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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