Variant report

Variant	rs58290373
Chromosome Location	chr1:152875358-152875359
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:152872190..152876672-chr1:152877317..152882225,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163207	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10494280	1.00[EUR][1000 genomes]
rs10494288	1.00[EUR][1000 genomes]
rs10888521	1.00[EUR][1000 genomes]
rs11205126	1.00[EUR][1000 genomes]
rs11205130	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11205131	0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11205147	1.00[EUR][1000 genomes]
rs11806470	1.00[EUR][1000 genomes]
rs12021601	1.00[EUR][1000 genomes]
rs12022870	1.00[EUR][1000 genomes]
rs12023643	1.00[EUR][1000 genomes]
rs12024694	1.00[EUR][1000 genomes]
rs12028228	0.91[ASN][1000 genomes]
rs12029192	1.00[EUR][1000 genomes]
rs12032522	1.00[EUR][1000 genomes]
rs12036697	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12037754	1.00[EUR][1000 genomes]
rs12047099	1.00[EUR][1000 genomes]
rs12047225	1.00[EUR][1000 genomes]
rs12047630	1.00[EUR][1000 genomes]
rs12047888	1.00[EUR][1000 genomes]
rs12239808	0.81[ASN][1000 genomes]
rs12239812	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12239814	0.81[ASN][1000 genomes]
rs1415973	1.00[EUR][1000 genomes]
rs16834746	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16834838	1.00[EUR][1000 genomes]
rs16834871	1.00[EUR][1000 genomes]
rs1846857	1.00[EUR][1000 genomes]
rs1974141	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1995307	1.00[EUR][1000 genomes]
rs2339383	1.00[EUR][1000 genomes]
rs2339501	1.00[EUR][1000 genomes]
rs28647391	1.00[EUR][1000 genomes]
rs2879484	0.83[ASN][1000 genomes]
rs2879485	0.83[ASN][1000 genomes]
rs36090881	1.00[EUR][1000 genomes]
rs3737862	1.00[EUR][1000 genomes]
rs3856020	1.00[EUR][1000 genomes]
rs4041337	1.00[EUR][1000 genomes]
rs4240863	1.00[EUR][1000 genomes]
rs4240864	1.00[EUR][1000 genomes]
rs4459054	0.96[AFR][1000 genomes]
rs4845328	1.00[EUR][1000 genomes]
rs4845498	1.00[EUR][1000 genomes]
rs58021079	1.00[EUR][1000 genomes]
rs59837747	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60500053	1.00[EUR][1000 genomes]
rs61482767	1.00[EUR][1000 genomes]
rs61491150	1.00[EUR][1000 genomes]
rs62641593	0.96[AFR][1000 genomes]
rs6668295	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757755	chr1:152472839-152898153	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	esv2758970	chr1:152472839-152898153	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv427786	chr1:152572990-152898153	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv1013433	chr1:152619305-153262215	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
5	nsv535170	chr1:152619305-153262215	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
6	nsv1001834	chr1:152648853-153279143	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
7	nsv547899	chr1:152672005-153245082	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
8	nsv831592	chr1:152815054-152997162	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv998873	chr1:152869127-152975258	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 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	chr1:152872600-152876600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:152874000-152876000	Enhancers	Esophagus	oesophagus
3	chr1:152874200-152876400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr1:152874200-152876600	Weak transcription	GM12878-XiMat	blood
5	chr1:152874800-152876600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr1:152874800-152876600	Weak transcription	NHEK	skin
7	chr1:152874800-152876800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:152874800-152877200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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