Variant report

Variant	rs73875492
Chromosome Location	chr3:161043099-161043100
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:161038392..161046344-chr3:161085640..161093564,25	MCF-7	breast:
2	chr3:160942925..160944989-chr3:161039772..161043116,3	MCF-7	breast:
3	chr3:160940058..160942666-chr3:161042036..161044035,3	MCF-7	breast:
4	chr3:161006869..161011120-chr3:161039575..161043501,7	MCF-7	breast:
5	chr3:161041936..161043684-chr3:161128783..161133001,3	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SPTSSB-3	chr3:161042701-161044007	NONHSAT093013

No data

Variant related genes	Relation type
ENSG00000271052	Chromatin interaction
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12108169	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12374001	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12629152	0.95[AMR][1000 genomes]
rs12629929	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12630038	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12631467	0.84[AMR][1000 genomes]
rs12632346	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12633103	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12636434	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12636573	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12636590	0.95[AMR][1000 genomes]
rs1478568	0.80[ASN][1000 genomes]
rs16834031	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1904204	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28853731	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4132373	0.95[AMR][1000 genomes]
rs55949838	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56174161	0.84[AMR][1000 genomes]
rs56741879	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56890199	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57441646	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59827519	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs60228180	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60277631	0.89[AMR][1000 genomes]
rs60801542	0.95[AMR][1000 genomes]
rs61193379	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61578814	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs61596736	0.95[AMR][1000 genomes]
rs73875456	0.84[AMR][1000 genomes]
rs73875458	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73875460	0.84[AMR][1000 genomes]
rs73875464	0.84[AMR][1000 genomes]
rs73875472	0.90[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73875473	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs73875482	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73875500	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73875502	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73878303	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73878304	0.81[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:1 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161042200-161043800	Enhancers	HepG2	liver

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