Variant report

Variant	rs61162302
Chromosome Location	chr4:69927394-69927395
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:69925736..69927833-chr4:69929000..69931725,2	MCF-7	breast:

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10006595	0.91[ASN][1000 genomes]
rs10447075	0.80[EUR][1000 genomes]
rs10447076	0.81[EUR][1000 genomes]
rs10447077	0.81[EUR][1000 genomes]
rs10452447	0.85[EUR][1000 genomes]
rs1075100	0.80[EUR][1000 genomes]
rs12645107	0.88[EUR][1000 genomes]
rs12648462	0.92[EUR][1000 genomes]
rs17146872	0.87[EUR][1000 genomes]
rs17146900	0.81[EUR][1000 genomes]
rs17147077	0.85[EUR][1000 genomes]
rs17520029	0.83[EUR][1000 genomes]
rs1824266	0.85[EUR][1000 genomes]
rs1841050	0.86[EUR][1000 genomes]
rs1841051	0.86[EUR][1000 genomes]
rs1841054	0.87[EUR][1000 genomes]
rs1973106	0.88[EUR][1000 genomes]
rs2018024	0.86[EUR][1000 genomes]
rs2290764	0.86[EUR][1000 genomes]
rs2290765	0.84[EUR][1000 genomes]
rs2331569	0.81[EUR][1000 genomes]
rs2331570	0.81[EUR][1000 genomes]
rs28386872	0.91[ASN][1000 genomes]
rs35470687	0.86[EUR][1000 genomes]
rs4326076	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4336293	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4467643	0.81[EUR][1000 genomes]
rs4472206	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4590113	0.81[EUR][1000 genomes]
rs4604120	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4694487	0.84[EUR][1000 genomes]
rs55725814	0.88[EUR][1000 genomes]
rs57520789	0.84[EUR][1000 genomes]
rs57631654	0.85[EUR][1000 genomes]
rs57955338	0.91[EUR][1000 genomes]
rs58016259	0.86[EUR][1000 genomes]
rs58077880	0.98[EUR][1000 genomes]
rs58174838	0.99[EUR][1000 genomes]
rs58655780	0.98[EUR][1000 genomes]
rs58878867	0.90[EUR][1000 genomes]
rs59300882	0.82[EUR][1000 genomes]
rs59449984	0.85[EUR][1000 genomes]
rs59728350	0.86[EUR][1000 genomes]
rs59970425	0.98[EUR][1000 genomes]
rs61021826	0.86[EUR][1000 genomes]
rs61174505	0.98[EUR][1000 genomes]
rs61235442	0.85[EUR][1000 genomes]
rs61416981	0.86[EUR][1000 genomes]
rs6833862	0.98[EUR][1000 genomes]
rs72851317	0.97[EUR][1000 genomes]
rs72851318	0.96[EUR][1000 genomes]
rs72851322	0.96[EUR][1000 genomes]
rs72851362	0.99[EUR][1000 genomes]
rs72851371	0.93[EUR][1000 genomes]
rs72851378	0.98[EUR][1000 genomes]
rs72851379	0.98[EUR][1000 genomes]
rs72852429	0.97[EUR][1000 genomes]
rs72852498	0.94[EUR][1000 genomes]
rs72853561	0.92[EUR][1000 genomes]
rs72853597	0.90[EUR][1000 genomes]
rs72855408	0.88[EUR][1000 genomes]
rs72855411	0.88[EUR][1000 genomes]
rs73826069	0.97[EUR][1000 genomes]
rs7438042	0.98[EUR][1000 genomes]
rs7440384	0.81[EUR][1000 genomes]
rs7660744	0.99[EUR][1000 genomes]
rs7677390	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999654	chr4:69661415-70132110	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	esv3420586	chr4:69680878-70322918	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
3	nsv1067773	chr4:69718248-70715727	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	esv3468151	chr4:69718675-70322776	Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
5	esv3468153	chr4:69718675-70322776	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
6	nsv594582	chr4:69827340-69988378	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv879379	chr4:69878929-69987249	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:69923800-69932400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:69925000-69928800	Weak transcription	Fetal Kidney	kidney
3	chr4:69925000-69930000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr4:69925000-69932600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr4:69925600-69927400	Enhancers	Liver	Liver
6	chr4:69925800-69929600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr4:69926600-69927400	Enhancers	Stomach Mucosa	stomach
8	chr4:69926600-69927800	Genic enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links