Variant report

Variant	rs9862086
Chromosome Location	chr3:160766163-160766164
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10154889	0.90[AMR][1000 genomes]
rs10433352	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11715733	0.91[AMR][1000 genomes]
rs11717272	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11720263	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11915989	0.83[EUR][1000 genomes]
rs11922957	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11922959	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12696112	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12696113	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13060601	0.86[EUR][1000 genomes]
rs13060718	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13062651	0.87[AMR][1000 genomes]
rs13071892	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13085336	0.86[EUR][1000 genomes]
rs13098896	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13256	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13315565	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1562464	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1599388	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16831796	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs16831886	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2014810	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34221255	0.82[AMR][1000 genomes]
rs34630898	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35914913	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4494975	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4521287	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4679929	0.89[AMR][1000 genomes]
rs57145341	0.94[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6441362	0.86[EUR][1000 genomes]
rs6772723	0.83[EUR][1000 genomes]
rs6794882	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6806015	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs68166680	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73021215	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73023235	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7433918	0.81[AMR][1000 genomes]
rs7610432	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7618455	0.80[AMR][1000 genomes]
rs7618924	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7624185	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7628389	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs898677	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs964533	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9812507	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9822435	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9832109	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9857855	0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9876142	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9880269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9883566	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9862086	SPTSSB	cis	Thyroid	GTEx
rs9862086	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160745200-160782600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:160760800-160767600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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