Variant report

Variant	rs12413825
Chromosome Location	chr10:90220057-90220058
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10509551	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10887822	0.99[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10887831	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11202746	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11202748	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11202752	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11202754	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11202757	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11202761	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11202766	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12357364	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12357948	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12359950	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360281	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12413139	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12572235	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1325906	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1342455	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1342458	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1536252	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17112571	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17112575	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1891431	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2153855	0.99[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2185785	0.99[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28794023	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4145084	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4520503	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933482	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933483	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4934406	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4934410	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61640455	0.92[EUR][1000 genomes]
rs7076491	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73355485	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73355487	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9664569	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90193800-90227600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:90216400-90220200	Weak transcription	Psoas Muscle	Psoas
3	chr10:90216800-90227400	Weak transcription	Ovary	ovary
4	chr10:90218000-90220600	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr10:90218400-90220600	Weak transcription	Right Atrium	heart
6	chr10:90218400-90226200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr10:90219600-90220200	Enhancers	Pancreatic Islets	Pancreatic Islet
8	chr10:90219600-90220800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr10:90219800-90220200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:90219800-90220400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr10:90220000-90220200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:90220000-90220200	Enhancers	Monocytes-CD14+_RO01746	blood

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