Variant report

Variant	rs1904204
Chromosome Location	chr3:161039528-161039529
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:161038392..161046344-chr3:161085640..161093564,25	MCF-7	breast:
2	chr3:160817177..160819500-chr3:161037998..161040761,2	MCF-7	breast:
3	chr3:161038719..161041654-chr3:161128838..161130653,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction
ENSG00000169255	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs12108169	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12374001	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12629152	0.95[AMR][1000 genomes]
rs12629929	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12630038	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12631467	0.84[AMR][1000 genomes]
rs12632346	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12633103	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12636434	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12636573	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12636590	0.95[AMR][1000 genomes]
rs1478568	0.83[ASN][1000 genomes]
rs16834031	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28853731	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4132373	0.95[AMR][1000 genomes]
rs4856768	0.80[ASN][1000 genomes]
rs55949838	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56174161	0.84[AMR][1000 genomes]
rs56741879	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56890199	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57441646	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs59827519	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60228180	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60277631	0.89[AMR][1000 genomes]
rs60801542	0.95[AMR][1000 genomes]
rs61193379	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61578814	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs61596736	0.95[AMR][1000 genomes]
rs73875456	0.84[AMR][1000 genomes]
rs73875458	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73875460	0.84[AMR][1000 genomes]
rs73875464	0.84[AMR][1000 genomes]
rs73875472	0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73875473	0.95[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73875482	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73875492	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73875500	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs73875502	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs73878303	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9839527	0.80[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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv4091	chr3:161018540-161063875	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases

No data

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

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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