Variant report

Variant	rs11639913
Chromosome Location	chr16:80064946-80064947
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	chr16:80052898..80058811-chr16:80059069..80065197,11	MCF-7	breast:
2	chr16:80063723..80065397-chr16:80069694..80072039,2	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11150240	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11642318	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11859577	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11862722	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12918435	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28396518	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4134366	0.94[EUR][1000 genomes]
rs4286117	0.81[AMR][1000 genomes]
rs4427815	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4486901	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4617874	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4888065	0.80[ASN][1000 genomes]
rs4888066	0.80[ASN][1000 genomes]
rs4889071	0.80[ASN][1000 genomes]
rs4889072	0.80[ASN][1000 genomes]
rs4889073	0.80[ASN][1000 genomes]
rs4889074	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4889075	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4889077	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4889079	0.94[EUR][1000 genomes]
rs4889081	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6564726	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7189965	0.90[EUR][1000 genomes]
rs9921252	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9929398	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][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	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv573294	chr16:80005642-80131944	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:80061400-80068800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr16:80061600-80065200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr16:80062000-80068000	Weak transcription	HSMM	muscle
4	chr16:80062000-80069800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr16:80062000-80075000	Weak transcription	NH-A	brain
6	chr16:80062800-80070200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr16:80063400-80067000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr16:80063600-80067200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr16:80063800-80065400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr16:80064000-80072400	Weak transcription	Esophagus	oesophagus
11	chr16:80064400-80072200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr16:80064600-80072200	Weak transcription	NHEK	skin
13	chr16:80064600-80073600	Weak transcription	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links