Variant report

Variant	rs10052367
Chromosome Location	chr5:59067596-59067597
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOS	chr5:59067482-59067610	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr5:59060717-59070261	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr5:59067426-59067919	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
PDE4D	TF binding region

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10045168	1.00[ASN][1000 genomes]
rs10052716	1.00[ASN][1000 genomes]
rs10062267	1.00[ASN][1000 genomes]
rs10065233	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10073739	1.00[ASN][1000 genomes]
rs10076914	1.00[ASN][1000 genomes]
rs10472114	1.00[ASN][1000 genomes]
rs11741470	1.00[ASN][1000 genomes]
rs13164391	1.00[ASN][1000 genomes]
rs13168643	1.00[ASN][1000 genomes]
rs13177163	1.00[ASN][1000 genomes]
rs13361053	1.00[ASN][1000 genomes]
rs159615	1.00[ASN][1000 genomes]
rs159618	1.00[ASN][1000 genomes]
rs159621	1.00[ASN][1000 genomes]
rs159625	0.83[ASN][1000 genomes]
rs16890078	0.83[ASN][1000 genomes]
rs173944	1.00[ASN][1000 genomes]
rs194368	1.00[ASN][1000 genomes]
rs1960603	1.00[ASN][1000 genomes]
rs256349	1.00[ASN][1000 genomes]
rs256351	1.00[ASN][1000 genomes]
rs256354	1.00[ASN][1000 genomes]
rs35302677	1.00[ASN][1000 genomes]
rs56063442	1.00[ASN][1000 genomes]
rs58802762	1.00[ASN][1000 genomes]
rs61229155	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62370463	1.00[ASN][1000 genomes]
rs62370466	1.00[ASN][1000 genomes]
rs62370490	1.00[ASN][1000 genomes]
rs62370491	1.00[ASN][1000 genomes]
rs62370494	1.00[ASN][1000 genomes]
rs62370495	1.00[ASN][1000 genomes]
rs62370496	1.00[ASN][1000 genomes]
rs62370498	1.00[ASN][1000 genomes]
rs62370501	1.00[ASN][1000 genomes]
rs62370505	1.00[ASN][1000 genomes]
rs62370506	1.00[ASN][1000 genomes]
rs62370529	1.00[ASN][1000 genomes]
rs6865975	1.00[ASN][1000 genomes]
rs72751228	1.00[ASN][1000 genomes]
rs7706277	1.00[ASN][1000 genomes]
rs7706573	1.00[ASN][1000 genomes]
rs7732908	1.00[ASN][1000 genomes]
rs9292212	1.00[ASN][1000 genomes]
rs9292213	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881708	chr5:58869051-59093198	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1018015	chr5:58889470-59532667	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv537766	chr5:58889470-59532667	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv427720	chr5:58913581-59086987	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA	11 gene(s)	inside rSNPs	diseases
5	nsv534614	chr5:58962510-59388525	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59064800-59067600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr5:59064800-59067800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:59065200-59067600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr5:59065200-59068000	Weak transcription	Stomach Mucosa	stomach
5	chr5:59065200-59072800	Weak transcription	Aorta	Aorta
6	chr5:59065800-59070000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:59066000-59070400	Enhancers	Hela-S3	cervix
8	chr5:59066000-59081200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr5:59066200-59067800	Weak transcription	HMEC	breast
10	chr5:59067000-59067800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr5:59067400-59068000	Enhancers	A549	lung
12	chr5:59067400-59068400	Enhancers	Rectal Smooth Muscle	rectum
13	chr5:59067400-59069200	Enhancers	Colon Smooth Muscle	Colon
14	chr5:59067400-59069400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr5:59067400-59070000	Enhancers	NHEK	skin

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