Variant report

Variant	rs16953795
Chromosome Location	chr13:97667201-97667202
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10162251	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs10454520	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10454521	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12184892	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16953709	1.00[GIH][hapmap]
rs16953796	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16953798	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16953867	1.00[GIH][hapmap]
rs28781694	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55833408	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56205467	1.00[EUR][1000 genomes]
rs56414202	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56658652	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57300347	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59153260	1.00[EUR][1000 genomes]
rs59776675	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60377207	1.00[EUR][1000 genomes]
rs60711187	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs60944822	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7318927	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7325145	1.00[EUR][1000 genomes]
rs7333122	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7336344	1.00[EUR][1000 genomes]
rs7337147	1.00[EUR][1000 genomes]
rs7337202	1.00[EUR][1000 genomes]
rs73550824	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73550827	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73550841	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7358813	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7358841	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7358984	0.91[AFR][1000 genomes]
rs74107015	1.00[EUR][1000 genomes]
rs74107017	1.00[EUR][1000 genomes]
rs74107019	1.00[EUR][1000 genomes]
rs74107022	1.00[EUR][1000 genomes]
rs74107024	1.00[EUR][1000 genomes]
rs74107026	1.00[EUR][1000 genomes]
rs74107028	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74107102	1.00[EUR][1000 genomes]
rs74107315	1.00[EUR][1000 genomes]
rs74110103	1.00[EUR][1000 genomes]
rs7983307	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7987055	0.91[AFR][1000 genomes]
rs7988430	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7988579	0.91[AFR][1000 genomes]
rs7989049	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7993976	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7994204	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7999025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7999095	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8001111	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs8001865	1.00[EUR][1000 genomes]
rs9300385	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9582108	1.00[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	nsv832693	chr13:97594845-97777481	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16953795	HS6ST3	cis	lymphoblastoid	seeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97664200-97670600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:97664200-97673000	Weak transcription	Fetal Intestine Large	intestine
3	chr13:97664600-97670400	Weak transcription	Placenta	Placenta
4	chr13:97667200-97668600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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