Variant report

Variant	rs17696783
Chromosome Location	chr3:28537611-28537612
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:28536026..28538572-chr3:28540874..28543752,2	MCF-7	breast:

Extended variants
information (count: 110 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs1037723	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705962	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11706332	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.89[MEX][hapmap];0.82[TSI][hapmap];0.82[ASN][1000 genomes]
rs11707705	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11710963	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11712484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11712489	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11720107	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.87[TSI][hapmap];0.92[ASN][1000 genomes]
rs11918050	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11921692	0.91[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.95[ASN][1000 genomes]
rs11921943	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs11924173	0.95[ASN][1000 genomes]
rs11926399	0.97[ASN][1000 genomes]
rs13066118	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13074633	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13075840	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs13080155	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13081520	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.92[ASN][1000 genomes]
rs13081787	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13082167	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs13085075	1.00[CHB][hapmap]
rs13087143	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13087774	0.82[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13088574	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.97[ASN][1000 genomes]
rs13090439	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs13095628	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.87[TSI][hapmap];0.95[ASN][1000 genomes]
rs13095675	1.00[CHB][hapmap];0.81[CHD][hapmap]
rs1457909	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1457910	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1585211	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs1598846	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.85[YRI][hapmap]
rs1606386	0.81[ASN][1000 genomes]
rs17021381	0.82[YRI][hapmap]
rs17021402	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs17357206	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.89[ASN][1000 genomes]
rs17638991	0.86[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.89[MEX][hapmap];0.83[TSI][hapmap];0.81[ASN][1000 genomes]
rs17639978	0.86[CEU][hapmap];0.93[GIH][hapmap];0.88[TSI][hapmap]
rs17695765	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.94[MEX][hapmap];0.82[TSI][hapmap];0.81[ASN][1000 genomes]
rs17695884	0.87[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs17696025	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.92[ASN][1000 genomes]
rs17696459	0.82[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs17696561	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1870259	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs2168799	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs34311197	0.92[ASN][1000 genomes]
rs34574968	0.81[ASN][1000 genomes]
rs34796684	0.91[ASN][1000 genomes]
rs35088087	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs35137555	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35177150	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35702956	0.91[ASN][1000 genomes]
rs35825908	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35845822	0.80[ASN][1000 genomes]
rs36051688	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs36105900	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.88[JPT][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap];0.91[ASN][1000 genomes]
rs3762797	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4234337	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4234338	0.86[CEU][hapmap];0.84[CHB][hapmap];0.86[JPT][hapmap]
rs4234339	0.86[JPT][hapmap]
rs4234341	0.82[CEU][hapmap];0.86[JPT][hapmap];0.80[TSI][hapmap]
rs4256085	0.87[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4295137	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4322963	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4368456	0.82[CEU][hapmap];0.86[JPT][hapmap]
rs4428136	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4450765	0.87[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4452283	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4680753	0.87[AFR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4680909	1.00[CHB][hapmap];0.80[CHD][hapmap]
rs4680913	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs58918848	0.95[ASN][1000 genomes]
rs59975750	0.93[ASN][1000 genomes]
rs60043893	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs62250271	0.97[ASN][1000 genomes]
rs62250272	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs62250273	0.96[ASN][1000 genomes]
rs62250296	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62251105	0.81[ASN][1000 genomes]
rs62251131	0.91[ASN][1000 genomes]
rs62251134	0.91[ASN][1000 genomes]
rs62251138	0.92[ASN][1000 genomes]
rs62251144	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6551255	0.95[ASN][1000 genomes]
rs66733194	0.92[ASN][1000 genomes]
rs66767946	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6771057	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs6771460	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6803692	1.00[CHB][hapmap]
rs68085718	0.95[ASN][1000 genomes]
rs7434193	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.95[ASN][1000 genomes]
rs7627471	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7627575	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7635383	0.81[ASN][1000 genomes]
rs7638450	0.97[ASN][1000 genomes]
rs7639750	1.00[CHB][hapmap]
rs7641491	1.00[CHB][hapmap]
rs7643191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7649498	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs7651883	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs952888	0.85[CEU][hapmap];0.80[ASN][1000 genomes]
rs9683360	0.89[ASN][1000 genomes]
rs969443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9817953	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9843464	1.00[CHB][hapmap];0.85[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328565	chr3:27991169-28915035	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv876649	chr3:28126595-28718454	Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv876650	chr3:28427029-28613602	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1015015	chr3:28461972-28728494	Bivalent/Poised TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv916364	chr3:28468275-29146280	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv590010	chr3:28469830-28727214	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17696783	SSTR2	trans	brain	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:28514800-28575800	Weak transcription	Ovary	ovary
2	chr3:28527800-28539600	Weak transcription	Adipose Nuclei	Adipose
3	chr3:28536600-28538400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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