Variant report

Variant	rs1552184
Chromosome Location	chr5:44537114-44537115
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:44536611..44537431-chr5:44774185..44774879,3	MCF-7	breast:
2	chr5:44536936..44537441-chr5:44604119..44604622,2	MCF-7	breast:
3	chr5:44536249..44537230-chr5:44740478..44741510,4	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10061166	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10062760	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10941672	0.84[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs10941673	0.93[EUR][1000 genomes]
rs1116180	0.87[EUR][1000 genomes]
rs12186589	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12188017	0.90[EUR][1000 genomes]
rs12188390	0.84[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs13355269	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13358061	0.91[EUR][1000 genomes]
rs1482695	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1531803	0.97[EUR][1000 genomes]
rs16901868	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17319592	0.89[EUR][1000 genomes]
rs1871950	0.90[EUR][1000 genomes]
rs2128431	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2330570	0.98[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs28561538	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56313556	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs57777873	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58261355	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58826391	0.90[EUR][1000 genomes]
rs60912459	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61399521	0.90[EUR][1000 genomes]
rs6451764	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6869262	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs6870835	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6884170	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72748041	0.91[EUR][1000 genomes]
rs72748047	0.91[EUR][1000 genomes]
rs72748048	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72748056	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72748063	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72748065	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72748076	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72748082	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72748092	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72750279	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73752037	0.91[EUR][1000 genomes]
rs7733376	0.91[EUR][1000 genomes]
rs922853	0.91[EUR][1000 genomes]
rs922854	0.91[EUR][1000 genomes]
rs922855	1.00[CEU][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs957739	0.83[AMR][1000 genomes];0.92[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	nsv830277	chr5:44383402-44566881	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1552184	LOC647121	Cis_chr	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:44526000-44539800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:44528200-44544800	Weak transcription	Fetal Lung	lung
3	chr5:44533600-44538600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:44533800-44538400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr5:44535000-44538800	Enhancers	Hela-S3	cervix
6	chr5:44537000-44537200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr5:44537000-44537200	Enhancers	Skeletal Muscle Male	skeletal muscle

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