Variant report

Variant	rs61640455
Chromosome Location	chr10:90288377-90288378
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90285144..90287206-chr10:90288284..90290388,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10509551	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10887822	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11202746	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11202748	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11202752	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11202754	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11202757	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11202761	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11202766	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11202767	0.81[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs12357364	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12357948	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12359950	0.92[EUR][1000 genomes]
rs12360281	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12413139	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12413825	0.92[EUR][1000 genomes]
rs12572235	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1325906	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1342455	0.92[EUR][1000 genomes]
rs1342458	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1536252	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17112571	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17112575	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1891431	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2153855	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2185785	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28794023	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4145084	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4520503	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4933482	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4933483	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4934406	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4934410	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7076491	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73355485	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73355487	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9664569	0.85[AMR][1000 genomes];0.93[EUR][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	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
2	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
3	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
4	nsv533167	chr10:90236197-90341481	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv430254	chr10:90265420-90500520	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90283800-90288800	Weak transcription	Fetal Lung	lung
2	chr10:90285800-90289800	Weak transcription	HSMM	muscle
3	chr10:90286000-90290000	Enhancers	Muscle Satellite Cultured Cells	--
4	chr10:90286000-90290800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr10:90286000-90291200	Weak transcription	Duodenum Mucosa	Duodenum
6	chr10:90286200-90291200	Weak transcription	Liver	Liver
7	chr10:90287000-90288800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:90287000-90289000	Weak transcription	Thymus	Thymus
9	chr10:90287200-90290200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr10:90288000-90288400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:90288000-90289000	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr10:90288000-90291400	Enhancers	Fetal Thymus	thymus
13	chr10:90288200-90288600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:90288200-90289200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr10:90288200-90289200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:90288200-90289200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr10:90288200-90290000	Weak transcription	Hela-S3	cervix

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