Variant report

Variant	rs1032499
Chromosome Location	chr3:23240519-23240520
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23229817..23231730-chr3:23239013..23241977,2	MCF-7	breast:
2	chr3:23240263..23242304-chr3:23245058..23246936,2	K562	blood:
3	chr3:23239501..23241404-chr3:23243092..23246536,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000182247	Chromatin interaction
ENSG00000233153	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1013460	0.83[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1027379	0.81[CHB][hapmap];0.93[JPT][hapmap]
rs11129116	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs11714151	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11720461	0.90[JPT][hapmap]
rs11721203	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11916627	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12330479	0.89[JPT][hapmap]
rs12493361	0.95[JPT][hapmap]
rs12629848	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs13074192	0.90[JPT][hapmap]
rs13326048	0.95[JPT][hapmap]
rs1552930	0.89[JPT][hapmap]
rs17012812	0.82[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs17012869	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs2172828	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs2359759	0.94[JPT][hapmap]
rs28712166	0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3922891	0.88[ASN][1000 genomes]
rs4282081	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4318574	0.84[ASN][1000 genomes]
rs4432667	0.88[ASN][1000 genomes]
rs4561853	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4858062	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs4858482	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858483	0.82[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4858496	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs4858497	0.82[CHB][hapmap]
rs4858500	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs4858502	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs4858506	0.95[JPT][hapmap]
rs6550744	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6550746	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs6550748	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs6550755	0.85[JPT][hapmap]
rs6784195	0.95[JPT][hapmap]
rs6784771	0.84[JPT][hapmap]
rs6804123	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs6805889	0.85[JPT][hapmap]
rs7371852	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7374182	0.84[ASN][1000 genomes]
rs7617072	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs7631334	0.94[JPT][hapmap]
rs9310714	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9310715	0.82[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs9809176	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs9825778	0.94[JPT][hapmap]
rs9826877	0.87[CHB][hapmap];0.89[JPT][hapmap]
rs9836787	0.90[JPT][hapmap]
rs9839738	0.90[JPT][hapmap]
rs9841123	0.90[JPT][hapmap]
rs9846398	0.89[JPT][hapmap]
rs9847027	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs9847958	0.89[JPT][hapmap]
rs9848077	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs9849176	0.82[CHB][hapmap];0.93[JPT][hapmap]
rs9850944	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9854590	0.83[CHB][hapmap];0.89[JPT][hapmap]
rs9859651	0.94[JPT][hapmap]
rs9864908	0.90[JPT][hapmap]
rs9874082	0.95[JPT][hapmap]
rs9875663	0.99[ASN][1000 genomes]
rs9881332	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999882	chr3:23121533-23257718	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23237600-23242800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr3:23237800-23243800	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr3:23237800-23244000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr3:23238000-23243800	Weak transcription	Aorta	Aorta
5	chr3:23239600-23241200	Enhancers	Adipose Nuclei	Adipose
6	chr3:23240000-23240800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:23240000-23241000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:23240000-23241000	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr3:23240000-23241400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:23240000-23242000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:23240400-23240800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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