Variant report

Variant	rs2169497
Chromosome Location	chr3:110561866-110561867
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:110554837..110556884-chr3:110560750..110562467,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10755069	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12493974	0.81[ASN][1000 genomes]
rs1350930	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1350932	0.94[ASN][1000 genomes]
rs1350979	0.94[ASN][1000 genomes]
rs1381830	0.94[ASN][1000 genomes]
rs1381833	0.94[ASN][1000 genomes]
rs1381834	0.92[ASN][1000 genomes]
rs1381835	0.92[ASN][1000 genomes]
rs1381836	0.92[ASN][1000 genomes]
rs1462299	0.94[ASN][1000 genomes]
rs1462308	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1462326	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1462798	0.81[ASN][1000 genomes]
rs1462802	0.94[ASN][1000 genomes]
rs1542513	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1599576	0.98[ASN][1000 genomes]
rs16857350	0.92[ASN][1000 genomes]
rs16857358	0.86[ASN][1000 genomes]
rs16857373	0.81[ASN][1000 genomes]
rs1870926	0.94[ASN][1000 genomes]
rs2045784	0.92[ASN][1000 genomes]
rs2169565	0.94[ASN][1000 genomes]
rs2219706	0.81[ASN][1000 genomes]
rs2399364	0.92[ASN][1000 genomes]
rs2399369	0.92[ASN][1000 genomes]
rs4682024	0.98[ASN][1000 genomes]
rs4682025	0.98[ASN][1000 genomes]
rs4682027	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60037602	0.94[ASN][1000 genomes]
rs6763050	0.92[ASN][1000 genomes]
rs72948740	0.90[ASN][1000 genomes]
rs72948795	0.94[ASN][1000 genomes]
rs72948800	0.94[ASN][1000 genomes]
rs7629008	0.94[ASN][1000 genomes]
rs7650516	0.94[ASN][1000 genomes]
rs768686	1.00[EUR][1000 genomes]
rs936512	0.94[ASN][1000 genomes]
rs969940	0.92[ASN][1000 genomes]
rs9828260	0.94[ASN][1000 genomes]
rs9881407	0.98[ASN][1000 genomes]
rs9883216	0.94[ASN][1000 genomes]

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	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110556400-110587200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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