Variant report

Variant	rs34456643
Chromosome Location	chr18:12565250-12565251
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:12563622..12566393-chr18:12570721..12572643,2	MCF-7	breast:

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs10401097	0.80[ASN][1000 genomes]
rs10445428	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11080582	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11080583	0.99[ASN][1000 genomes]
rs11080584	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11080585	0.82[ASN][1000 genomes]
rs11080586	0.82[ASN][1000 genomes]
rs11659854	0.82[ASN][1000 genomes]
rs11663958	0.83[ASN][1000 genomes]
rs11664765	0.80[ASN][1000 genomes]
rs11664861	0.84[ASN][1000 genomes]
rs11664914	0.84[ASN][1000 genomes]
rs11664917	0.84[ASN][1000 genomes]
rs11664936	0.82[ASN][1000 genomes]
rs11665543	0.82[ASN][1000 genomes]
rs12326271	0.81[ASN][1000 genomes]
rs12454931	0.82[ASN][1000 genomes]
rs12455093	0.93[ASN][1000 genomes]
rs12455536	0.85[ASN][1000 genomes]
rs12455909	0.86[ASN][1000 genomes]
rs12457903	0.94[ASN][1000 genomes]
rs12604184	0.80[ASN][1000 genomes]
rs12604385	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12604400	0.82[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12604541	0.82[ASN][1000 genomes]
rs12605240	0.86[ASN][1000 genomes]
rs12605392	0.84[ASN][1000 genomes]
rs12606506	0.90[ASN][1000 genomes]
rs12709540	0.88[ASN][1000 genomes]
rs12953406	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12953578	0.80[ASN][1000 genomes]
rs12954614	0.91[ASN][1000 genomes]
rs12955161	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12955490	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12956133	0.80[ASN][1000 genomes]
rs12956385	0.84[ASN][1000 genomes]
rs12956885	0.84[ASN][1000 genomes]
rs12957151	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12957688	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12958200	0.82[ASN][1000 genomes]
rs12959015	0.90[ASN][1000 genomes]
rs12960150	0.80[ASN][1000 genomes]
rs12961695	0.85[ASN][1000 genomes]
rs12961966	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12962476	0.86[ASN][1000 genomes]
rs12963179	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12963325	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12964660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12965094	0.90[ASN][1000 genomes]
rs12970025	0.83[ASN][1000 genomes]
rs12970174	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs1893193	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1940974	0.86[ASN][1000 genomes]
rs1940975	0.82[ASN][1000 genomes]
rs2155698	0.82[ASN][1000 genomes]
rs2186907	0.82[ASN][1000 genomes]
rs28414067	0.82[ASN][1000 genomes]
rs28496036	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28582228	0.83[ASN][1000 genomes]
rs28886423	0.86[ASN][1000 genomes]
rs34072260	0.90[ASN][1000 genomes]
rs34178879	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34814556	0.92[ASN][1000 genomes]
rs34899007	0.90[ASN][1000 genomes]
rs35122110	0.89[ASN][1000 genomes]
rs35449211	0.88[ASN][1000 genomes]
rs35630805	0.84[ASN][1000 genomes]
rs35963756	0.99[ASN][1000 genomes]
rs4389196	0.86[ASN][1000 genomes]
rs4493131	0.89[ASN][1000 genomes]
rs4627434	0.82[ASN][1000 genomes]
rs4629035	0.80[ASN][1000 genomes]
rs55749182	0.99[ASN][1000 genomes]
rs58215411	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60505421	0.97[ASN][1000 genomes]
rs62097094	0.84[ASN][1000 genomes]
rs62097102	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs62097103	0.94[ASN][1000 genomes]
rs62097126	0.86[ASN][1000 genomes]
rs62097148	0.84[ASN][1000 genomes]
rs62097149	0.82[ASN][1000 genomes]
rs62097153	0.82[ASN][1000 genomes]
rs67045810	0.82[ASN][1000 genomes]
rs67268432	0.99[ASN][1000 genomes]
rs722708	0.85[ASN][1000 genomes]
rs7234697	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs723836	0.86[ASN][1000 genomes]
rs7238546	0.82[ASN][1000 genomes]
rs7242395	0.88[ASN][1000 genomes]
rs755020	0.84[ASN][1000 genomes]
rs755021	0.84[ASN][1000 genomes]
rs8086094	0.84[ASN][1000 genomes]
rs8087885	0.89[ASN][1000 genomes]
rs8088786	0.82[ASN][1000 genomes]
rs8089081	0.87[ASN][1000 genomes]
rs8089619	0.99[ASN][1000 genomes]
rs8093129	0.84[ASN][1000 genomes]
rs8093571	0.87[ASN][1000 genomes]
rs8095160	0.82[ASN][1000 genomes]
rs8096455	0.80[ASN][1000 genomes]
rs9303772	0.80[ASN][1000 genomes]
rs9303773	0.80[ASN][1000 genomes]
rs948301	0.84[ASN][1000 genomes]
rs948302	0.84[ASN][1000 genomes]
rs9675543	0.84[ASN][1000 genomes]
rs9945339	0.83[ASN][1000 genomes]
rs9947738	0.83[ASN][1000 genomes]
rs9948505	0.80[ASN][1000 genomes]
rs9951147	0.86[ASN][1000 genomes]
rs9954054	0.80[ASN][1000 genomes]
rs9958409	0.80[ASN][1000 genomes]
rs9959759	0.86[ASN][1000 genomes]
rs9961851	0.84[ASN][1000 genomes]
rs9964759	0.84[ASN][1000 genomes]
rs9965123	0.80[ASN][1000 genomes]
rs9989506	0.80[ASN][1000 genomes]
rs9989568	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	130 gene(s)	inside rSNPs	diseases
2	nsv491873	chr18:12159445-12739784	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
3	nsv909400	chr18:12201374-12585545	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
4	esv3528039	chr18:12396582-12851293	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	esv3528041	chr18:12396641-12851245	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
6	nsv523743	chr18:12474505-12742809	Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12553600-12567600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr18:12553600-12574600	Weak transcription	Right Ventricle	heart
3	chr18:12553800-12569600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr18:12554200-12567600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr18:12557600-12580800	Weak transcription	Pancreas	Pancrea
6	chr18:12558400-12569000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr18:12558400-12569200	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr18:12558600-12570200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr18:12559600-12569200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr18:12559800-12574600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr18:12560600-12569200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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