Variant report

Variant	rs9681506
Chromosome Location	chr3:23382243-23382244
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs17013009	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013099	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013329	0.83[YRI][hapmap]
rs28548892	1.00[AMR][1000 genomes]
rs28567933	1.00[AMR][1000 genomes]
rs28641973	1.00[AMR][1000 genomes]
rs57747253	1.00[AMR][1000 genomes]
rs58047209	1.00[AMR][1000 genomes]
rs58879825	1.00[AMR][1000 genomes]
rs61081559	1.00[AMR][1000 genomes]
rs61500565	1.00[AMR][1000 genomes]
rs61636332	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6768277	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6795043	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138415	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138434	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138436	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138449	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138480	1.00[AMR][1000 genomes]
rs73138490	1.00[AMR][1000 genomes]
rs73138492	1.00[AMR][1000 genomes]
rs73140509	1.00[AMR][1000 genomes]
rs73140514	1.00[AMR][1000 genomes]
rs73149654	1.00[AMR][1000 genomes]
rs73149686	1.00[AMR][1000 genomes]
rs73149689	1.00[AMR][1000 genomes]
rs7611624	1.00[AMR][1000 genomes]
rs7634565	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7646028	1.00[AMR][1000 genomes]
rs7652287	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9310716	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9809364	0.83[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9810378	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9811442	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819566	0.91[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819788	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9821681	0.82[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9829577	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834737	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9842159	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9845340	0.91[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9852053	0.83[YRI][hapmap];1.00[AMR][1000 genomes]
rs9861614	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs9866889	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9869171	0.92[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9878638	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879132	0.91[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879217	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1007373	chr3:23367952-23710331	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23367400-23391400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:23368000-23391000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:23372200-23383400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:23379000-23383600	Weak transcription	Psoas Muscle	Psoas
5	chr3:23380800-23382400	Enhancers	Primary B cells from cord blood	blood
6	chr3:23380800-23389400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:23381600-23383000	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr3:23381800-23383000	Enhancers	Duodenum Smooth Muscle	Duodenum
9	chr3:23382000-23382600	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr3:23382000-23383600	Flanking Active TSS	GM12878-XiMat	blood
11	chr3:23382000-23384600	Enhancers	Primary B cells from peripheral blood	blood
12	chr3:23382200-23382600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr3:23382200-23382600	Enhancers	Small Intestine	intestine
14	chr3:23382200-23382800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:23382200-23382800	Enhancers	Colon Smooth Muscle	Colon
16	chr3:23382200-23383000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:23382200-23383000	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr3:23382200-23383000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr3:23382200-23383200	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr3:23382200-23383400	Enhancers	HUVEC	blood vessel
21	chr3:23382200-23383600	Enhancers	Adipose Nuclei	Adipose
22	chr3:23382200-23384000	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links