Variant report

Variant	rs11202754
Chromosome Location	chr10:90226590-90226591
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90212145..90213848-chr10:90226282..90228506,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10509551	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10887822	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10887830	0.91[ASN][1000 genomes]
rs10887831	0.81[CEU][hapmap];0.83[AMR][1000 genomes]
rs11202746	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11202748	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11202752	0.90[CEU][hapmap];1.00[CHB][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11202757	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11202761	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11202766	0.82[CEU][hapmap];0.86[AMR][1000 genomes]
rs12356177	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12357364	0.82[CEU][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12357948	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12359950	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12360281	0.85[AMR][1000 genomes]
rs12413139	0.82[CEU][hapmap];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12413825	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12572235	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1325900	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.86[YRI][hapmap]
rs1325906	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1342455	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1342458	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1536252	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17112571	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17112575	1.00[CEU][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1891431	1.00[CEU][hapmap];0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2153855	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2185785	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28794023	0.99[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4145084	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4520503	0.99[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4933482	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4933483	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4934406	1.00[CEU][hapmap];0.99[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4934407	1.00[CHB][hapmap];0.82[JPT][hapmap];0.96[ASN][1000 genomes]
rs4934410	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4934414	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.86[YRI][hapmap]
rs61640455	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7076491	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73355485	0.85[AMR][1000 genomes]
rs73355487	0.82[AMR][1000 genomes]
rs9664569	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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
7	nsv825500	chr10:90221443-90302503	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 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	chr10:90193800-90227600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:90216800-90227400	Weak transcription	Ovary	ovary
3	chr10:90220200-90226800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:90221000-90227400	Weak transcription	Right Atrium	heart
5	chr10:90221000-90227400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr10:90224200-90227400	Weak transcription	Right Ventricle	heart
7	chr10:90224800-90227400	Weak transcription	Left Ventricle	heart
8	chr10:90225600-90227800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr10:90225800-90228600	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr10:90226000-90226800	Weak transcription	Psoas Muscle	Psoas
11	chr10:90226200-90227400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:90226200-90227800	Enhancers	HSMMtube	muscle
13	chr10:90226200-90228800	Enhancers	HSMM	muscle
14	chr10:90226400-90227000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr10:90226400-90228200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links