Variant report

Variant	rs16952289
Chromosome Location	chr16:80115831-80115832
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:80113643..80115562-chr16:80115792..80117610,2	K562	blood:
2	chr16:80112188..80115143-chr16:80115792..80118787,2	K562	blood:
3	chr16:79632936..79635053-chr16:80115388..80117460,2	MCF-7	breast:
4	chr16:80106596..80108539-chr16:80113874..80116025,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178573	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs12051173	0.91[AMR][1000 genomes]
rs16944260	1.00[AMR][1000 genomes]
rs16944264	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16952080	1.00[AMR][1000 genomes]
rs16952105	1.00[AMR][1000 genomes]
rs16952121	0.91[AMR][1000 genomes]
rs16952193	1.00[AMR][1000 genomes]
rs16952202	1.00[AMR][1000 genomes]
rs16952268	0.85[ASN][1000 genomes]
rs16952283	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16952305	0.92[ASN][1000 genomes]
rs16952339	0.92[ASN][1000 genomes]
rs16952348	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16952365	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16952392	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16952422	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16952526	1.00[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2126998	0.92[ASN][1000 genomes]
rs28455836	0.96[ASN][1000 genomes]
rs4888068	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4888069	0.85[ASN][1000 genomes]
rs4888071	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4888076	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4888077	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs4889069	0.91[AMR][1000 genomes]
rs4889078	1.00[AMR][1000 genomes]
rs4889080	0.83[AMR][1000 genomes]
rs4889082	1.00[AMR][1000 genomes]
rs4889085	1.00[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4889094	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4889097	0.92[ASN][1000 genomes]
rs4889101	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4889103	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4889104	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs56005515	0.92[ASN][1000 genomes]
rs57189314	0.92[ASN][1000 genomes]
rs7201181	0.96[ASN][1000 genomes]
rs73573920	0.91[AMR][1000 genomes]
rs73573922	0.91[AMR][1000 genomes]
rs8063394	0.83[AMR][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	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
3	nsv906995	chr16:80094975-80166677	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:80108800-80118000	Weak transcription	Fetal Stomach	stomach
2	chr16:80111800-80117800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr16:80112800-80118600	Enhancers	Fetal Intestine Small	intestine
4	chr16:80113200-80118000	Weak transcription	Liver	Liver
5	chr16:80113400-80117800	Weak transcription	Fetal Lung	lung
6	chr16:80114000-80116000	Enhancers	Duodenum Mucosa	Duodenum
7	chr16:80115600-80116200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr16:80115600-80116200	Enhancers	K562	blood
9	chr16:80115800-80116000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr16:80115800-80116200	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links