Variant report

Variant	rs28561538
Chromosome Location	chr5:44575804-44575805
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10061166	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10062760	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10941672	0.91[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs10941673	0.97[EUR][1000 genomes]
rs1116180	0.83[EUR][1000 genomes]
rs12186589	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12188017	0.86[EUR][1000 genomes]
rs12188390	0.86[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs13355269	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13358061	0.94[EUR][1000 genomes]
rs1482695	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1531803	0.93[EUR][1000 genomes]
rs1552184	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs16901868	0.86[EUR][1000 genomes]
rs17319592	0.85[EUR][1000 genomes]
rs1871950	0.87[EUR][1000 genomes]
rs2128431	0.86[EUR][1000 genomes]
rs2330570	0.91[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs56313556	0.88[EUR][1000 genomes]
rs57777873	0.86[EUR][1000 genomes]
rs58261355	0.86[EUR][1000 genomes]
rs58826391	0.87[EUR][1000 genomes]
rs60912459	0.86[EUR][1000 genomes]
rs61399521	0.87[EUR][1000 genomes]
rs6451764	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6869262	0.89[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs6870835	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs6884170	0.89[EUR][1000 genomes]
rs72748041	0.88[EUR][1000 genomes]
rs72748047	0.88[EUR][1000 genomes]
rs72748048	0.88[EUR][1000 genomes]
rs72748056	0.86[EUR][1000 genomes]
rs72748063	0.85[EUR][1000 genomes]
rs72748065	0.86[EUR][1000 genomes]
rs72748076	0.88[EUR][1000 genomes]
rs72748082	0.87[EUR][1000 genomes]
rs72748092	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72750279	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73752037	0.88[EUR][1000 genomes]
rs7733376	0.88[EUR][1000 genomes]
rs922853	0.88[EUR][1000 genomes]
rs922854	0.88[EUR][1000 genomes]
rs922855	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs957739	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830278	chr5:44540863-44713312	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2763451	chr5:44571144-44576171	Enhancers Weak transcription	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs28561538	LOC647121	Cis_chr	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:44575200-44579200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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