Variant report

Variant	rs4525863
Chromosome Location	chr3:133436136-133436137
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	chr3:133431282..133433899-chr3:133433909..133436143,2	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10433417	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10935073	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935074	0.87[EUR][1000 genomes]
rs11921527	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12493887	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12639304	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12769	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4075352	0.81[ASN][1000 genomes]
rs4459901	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4481157	0.88[CEU][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.80[ASN][1000 genomes]
rs6439431	0.90[EUR][1000 genomes]
rs6439435	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6774822	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6775042	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6777860	0.89[EUR][1000 genomes]
rs6780650	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6782523	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6787177	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6797713	0.83[EUR][1000 genomes]
rs6798547	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7646118	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8177177	0.92[CEU][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];0.80[ASN][1000 genomes]
rs8177178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8177197	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8177204	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8177224	0.92[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9829019	0.90[EUR][1000 genomes]
rs9830001	0.88[CEU][hapmap]
rs9830061	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9831392	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9869257	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9869535	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877506	chr3:133423473-133569777	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv933605	chr3:133425907-133680641	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv963279	chr3:133426521-133449029	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4525863	SRPRB	cis	parietal	SCAN
rs4525863	TOPBP1	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133412200-133437600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr3:133418800-133437600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr3:133431600-133436200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:133433200-133439400	Weak transcription	Ovary	ovary
5	chr3:133433800-133438000	Enhancers	HepG2	liver
6	chr3:133434200-133437000	Enhancers	Brain Substantia Nigra	brain
7	chr3:133434800-133437000	Enhancers	Brain Angular Gyrus	brain
8	chr3:133434800-133437000	Enhancers	Brain Hippocampus Middle	brain
9	chr3:133435400-133436800	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr3:133435600-133436400	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr3:133435800-133436600	Enhancers	Brain Anterior Caudate	brain
12	chr3:133436000-133437000	Enhancers	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links