Variant report

Variant	rs17195888
Chromosome Location	chr3:135580877-135580878
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:135579168..135581844-chr3:135582471..135585450,2	MCF-7	breast:

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11916990	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1401543	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1519261	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17196014	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17196097	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17249203	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1878993	1.00[ASN][1000 genomes]
rs2176666	1.00[ASN][1000 genomes]
rs2895793	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34629706	1.00[ASN][1000 genomes]
rs56382648	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56818259	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57895104	1.00[ASN][1000 genomes]
rs60349283	1.00[ASN][1000 genomes]
rs60545022	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61789012	1.00[ASN][1000 genomes]
rs61789017	1.00[ASN][1000 genomes]
rs61789025	1.00[ASN][1000 genomes]
rs61789026	1.00[ASN][1000 genomes]
rs61790390	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790396	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790400	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790401	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790403	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790404	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790457	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790458	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790459	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61791710	1.00[ASN][1000 genomes]
rs6414336	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6762218	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6765327	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769033	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769893	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786217	1.00[ASN][1000 genomes]
rs6802942	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs72977660	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73863014	1.00[ASN][1000 genomes]
rs73863035	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618257	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7635010	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs908827	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs980210	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9865234	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460860	chr3:135107678-135769006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv591829	chr3:135107678-135769006	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv829732	chr3:135561706-135756840	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17195888	SLCO2A1	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135579200-135581600	Enhancers	HSMM	muscle
2	chr3:135579200-135581800	Enhancers	HSMMtube	muscle
3	chr3:135580800-135581600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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