Variant report

Variant	rs3010789
Chromosome Location	chr1:213198663-213198664
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10465694	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10864034	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10864036	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11120080	0.83[EUR][1000 genomes]
rs1566247	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1976333	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2132428	0.93[ASN][1000 genomes]
rs2172982	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2935209	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2935219	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2936010	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2936011	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3002284	0.81[EUR][1000 genomes]
rs3002285	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3010779	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3010780	0.93[ASN][1000 genomes]
rs3010787	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3124668	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4543872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4951475	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4951476	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4951479	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4951662	0.83[ASN][1000 genomes]
rs6540778	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6540780	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6658259	0.81[AMR][1000 genomes]
rs6666814	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6691488	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6692056	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6692144	0.81[EUR][1000 genomes]
rs6699158	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][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	nsv1008594	chr1:213110654-213236750	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3010789	RPS6KC1	cis	Artery Tibial	GTEx
rs3010789	ANGEL2	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:213198600-213198800	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell

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