Variant report

Variant	rs1473899
Chromosome Location	chr4:28599767-28599768
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	chr4:28599052..28601001-chr4:28607450..28609596,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10939223	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11731287	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12645414	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12645493	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12645690	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12648305	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12650463	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13108631	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13111564	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13125878	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13126238	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13135668	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13139196	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13142519	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13151129	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1514127	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs16880756	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16880758	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16880781	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1972107	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1972108	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1988335	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs292015	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34630635	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34879877	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35032764	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35166292	0.85[AMR][1000 genomes]
rs35295695	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35642022	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35769888	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35806927	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4413395	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61791975	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61793746	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66584086	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67828300	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7664755	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7694223	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9790539	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs981579	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010133	chr4:28273244-28642942	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1014938	chr4:28277683-28642942	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2757926	chr4:28543958-28839437	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
4	esv2759239	chr4:28543958-28839437	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
5	nsv878781	chr4:28568780-28680520	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv829894	chr4:28587323-28740840	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv1848641	chr4:28588964-28760835	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv461313	chr4:28592154-28661526	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv593893	chr4:28592154-28661526	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	esv3349832	chr4:28599054-28601102	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:28588200-28623400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links