Variant report

Variant	rs11942959
Chromosome Location	chr4:15469789-15469790
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	chr4:15469326..15470996-chr4:15657243..15660173,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10004540	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10032808	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11942186	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13353624	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1468737	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16891867	0.81[ASN][1000 genomes]
rs1861045	0.81[ASN][1000 genomes]
rs1861046	0.81[ASN][1000 genomes]
rs1861049	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1861050	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2192359	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2192360	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2192361	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2192362	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28405315	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28448602	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28465445	0.93[ASN][1000 genomes]
rs28517424	0.84[ASN][1000 genomes]
rs28697056	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3822297	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4698107	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4698108	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4698381	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4698383	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4698384	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60487386	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61170754	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6814988	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6836616	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6837765	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs723299	0.81[ASN][1000 genomes]
rs7656974	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7661435	0.84[ASN][1000 genomes]
rs971490	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9998722	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15438800-15471200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:15459600-15470600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr4:15462000-15471000	Weak transcription	Aorta	Aorta
4	chr4:15467800-15471000	Weak transcription	Liver	Liver
5	chr4:15468000-15470800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr4:15468000-15470800	Weak transcription	Adipose Nuclei	Adipose
7	chr4:15468400-15471000	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr4:15468600-15471000	Weak transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links