Variant report

Variant	rs13069996
Chromosome Location	chr3:162428718-162428719
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10513594	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918363	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11918500	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11918979	0.87[EUR][1000 genomes]
rs11923774	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11924257	0.87[EUR][1000 genomes]
rs11927727	0.86[EUR][1000 genomes]
rs11928655	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12490517	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12491591	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12494148	0.90[ASN][1000 genomes]
rs12495037	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13058972	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13059540	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13060141	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13063263	0.85[EUR][1000 genomes]
rs13064537	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13067070	0.86[EUR][1000 genomes]
rs13073470	0.84[EUR][1000 genomes]
rs13075806	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13078228	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13083194	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13083759	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13084024	0.89[EUR][1000 genomes]
rs13087013	0.87[EUR][1000 genomes]
rs13088590	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13090685	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13090953	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13091802	0.87[EUR][1000 genomes]
rs13092345	0.87[EUR][1000 genomes]
rs13093528	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095618	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13097448	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13100415	0.85[EUR][1000 genomes]
rs13100841	0.87[EUR][1000 genomes]
rs13101227	0.86[EUR][1000 genomes]
rs17710556	0.86[EUR][1000 genomes]
rs1874508	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2132619	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2173064	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2220976	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34116551	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34478986	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34778164	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35261604	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs36057496	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3853174	0.87[EUR][1000 genomes]
rs3853175	0.87[EUR][1000 genomes]
rs3853176	0.87[EUR][1000 genomes]
rs3866343	0.86[EUR][1000 genomes]
rs3866344	0.86[EUR][1000 genomes]
rs3912605	0.87[EUR][1000 genomes]
rs4007775	0.82[EUR][1000 genomes]
rs4007776	0.83[EUR][1000 genomes]
rs4289366	0.86[EUR][1000 genomes]
rs55638495	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56139505	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs62292527	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62292533	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62292534	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71625443	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs903941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs982541	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs987233	0.87[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	nsv1006802	chr3:161921063-162599175	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv428424	chr3:162145988-163033943	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1012160	chr3:162182166-162540478	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv592201	chr3:162188625-163142162	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv470994	chr3:162217993-162945834	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1005142	chr3:162284967-162447818	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv877758	chr3:162287573-162521339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv877759	chr3:162303276-162521339	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv877761	chr3:162346392-162521339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv592208	chr3:162369863-162437102	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1005637	chr3:162379324-162635451	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv877762	chr3:162400620-162521339	Enhancers Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv869804	chr3:162414099-162776884	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv829776	chr3:162422424-162577578	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:162422800-162429400	Weak transcription	Colon Smooth Muscle	Colon
2	chr3:162427400-162429400	Weak transcription	A549	lung
3	chr3:162427600-162429400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:162428200-162428800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr3:162428400-162431400	Enhancers	Dnd41	blood
6	chr3:162428600-162430600	Weak transcription	HUES6 Cell Line	embryonic stem cell

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