Variant report

Variant	rs16828724
Chromosome Location	chr1:179460524-179460525
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10494519	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10913824	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs10913830	0.88[CEU][hapmap]
rs10913831	0.88[CEU][hapmap]
rs11799534	1.00[CEU][hapmap]
rs11799973	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs11801024	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11802834	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11803472	1.00[CEU][hapmap]
rs11805319	0.85[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11805875	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11806287	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11808359	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11809095	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11811313	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs12070589	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs16854006	1.00[CEU][hapmap]
rs16854153	1.00[YRI][hapmap]
rs17369441	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs1854336	0.80[EUR][1000 genomes]
rs2209923	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2209924	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6682308	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6689186	1.00[CEU][hapmap]
rs6698746	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs67908894	0.80[EUR][1000 genomes]
rs72704407	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704408	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704416	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704426	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704429	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704430	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704431	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704457	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72704464	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72704465	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72704468	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72706703	0.82[EUR][1000 genomes]
rs72706705	0.82[EUR][1000 genomes]
rs72706706	0.82[EUR][1000 genomes]
rs72706707	0.82[EUR][1000 genomes]
rs72706708	0.82[EUR][1000 genomes]
rs72719210	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72719259	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72721234	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72721237	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7520266	1.00[CEU][hapmap]
rs7554967	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv466217	chr1:179371973-179477921	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv548297	chr1:179371973-179477921	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv1826150	chr1:179455645-179469253	Inactive region	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
4	esv1820823	chr1:179455645-179479803	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16828724	SOAT1	cis	multi-tissue	Pritchard

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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