Variant report

Variant	rs11799534
Chromosome Location	chr1:179397711-179397712
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:179341117..179341930-chr1:179397158..179397756,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10494519	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10913824	1.00[CEU][hapmap]
rs10913830	0.88[CEU][hapmap]
rs10913831	0.88[CEU][hapmap]
rs11799973	0.85[CEU][hapmap]
rs11802834	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11803472	1.00[CEU][hapmap]
rs11805319	0.85[CEU][hapmap];0.83[AMR][1000 genomes]
rs11805875	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs11806287	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11808359	1.00[CEU][hapmap]
rs11809095	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12044010	0.83[YRI][hapmap]
rs12070589	1.00[CEU][hapmap]
rs16828724	1.00[CEU][hapmap]
rs16854006	1.00[CEU][hapmap]
rs17369441	1.00[CEU][hapmap]
rs2209923	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs2209924	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs6658180	0.85[YRI][hapmap]
rs6682308	0.83[AMR][1000 genomes]
rs6689186	1.00[CEU][hapmap]
rs6698746	1.00[CEU][hapmap]
rs72704407	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704408	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704416	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704426	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704429	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704430	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704431	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704457	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72704464	0.83[AMR][1000 genomes]
rs72704465	0.83[AMR][1000 genomes]
rs72704468	0.83[AMR][1000 genomes]
rs72717535	0.84[AMR][1000 genomes]
rs72717536	0.89[AMR][1000 genomes]
rs72719210	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72719259	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72721234	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72721237	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7520266	1.00[CEU][hapmap]
rs7554967	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3514400	chr1:179349344-179400533	Enhancers Active TSS ZNF genes & repeats Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	esv3514401	chr1:179349344-179400533	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3451112	chr1:179352344-179400533	Enhancers ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv1819329	chr1:179371973-179442337	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	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
6	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
7	nsv548298	chr1:179376896-179436288	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11799534	SOAT1	cis	multi-tissue	Pritchard

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
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