Variant report

Variant	rs62276556
Chromosome Location	chr3:100234430-100234431
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100234281..100237068-chr3:100240897..100243194,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs11923942	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11927516	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12631075	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12634371	0.91[EUR][1000 genomes]
rs12636452	0.82[AMR][1000 genomes]
rs12636805	0.90[EUR][1000 genomes]
rs12639465	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4928097	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4928110	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs55789829	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs56402168	0.90[ASN][1000 genomes]
rs56779007	0.97[ASN][1000 genomes]
rs57018910	0.95[EUR][1000 genomes]
rs58689996	0.83[AMR][1000 genomes]
rs59299896	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60071944	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60272820	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60511852	0.83[AMR][1000 genomes]
rs61636409	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276517	0.92[EUR][1000 genomes]
rs62276520	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276521	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276522	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276523	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62276526	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62276559	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6441300	0.97[ASN][1000 genomes]
rs6441308	0.93[AFR][1000 genomes]
rs66791174	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67600559	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6763079	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6763178	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67774605	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6780654	0.91[AFR][1000 genomes]
rs6792014	0.90[AFR][1000 genomes]
rs6798264	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73152126	0.90[EUR][1000 genomes]
rs7426815	0.92[AFR][1000 genomes]
rs7429072	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7429277	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7429392	0.80[ASN][1000 genomes]
rs7429604	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7430698	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7430715	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7431846	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7650523	0.97[ASN][1000 genomes]
rs7653196	0.97[ASN][1000 genomes]
rs9810780	0.85[ASN][1000 genomes]
rs9851429	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877218	chr3:100176360-100267619	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62276556	TMEM45A	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100225400-100236800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:100225800-100235000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:100227200-100239400	Weak transcription	Ovary	ovary
4	chr3:100227400-100239400	Weak transcription	Aorta	Aorta
5	chr3:100227400-100239400	Weak transcription	Fetal Stomach	stomach
6	chr3:100227600-100236200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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