Variant report

Variant	rs59441715
Chromosome Location	chr1:152876170-152876171
allele	A/C
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: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11802167	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11802181	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11802222	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11803737	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11804354	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11804404	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11804419	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11805896	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11809092	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11809110	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12240158	1.00[ASN][1000 genomes]
rs12403761	1.00[ASN][1000 genomes]
rs16834736	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs16834740	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16834743	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58015557	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs58540020	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61095410	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61146280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6665277	0.93[AMR][1000 genomes];1.00[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:9 , 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	chr1:152874200-152876400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:152874200-152876600	Weak transcription	GM12878-XiMat	blood
4	chr1:152874800-152876600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr1:152874800-152876600	Weak transcription	NHEK	skin
6	chr1:152874800-152876800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr1:152874800-152877200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:152875800-152876600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr1:152876000-152878200	Weak transcription	Esophagus	oesophagus

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