Variant report

Variant	rs9866739
Chromosome Location	chr3:23298683-23298684
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10510536	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11926494	0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs11927173	0.92[ASN][1000 genomes]
rs13314285	0.82[ASN][1000 genomes]
rs1495130	0.91[ASN][1000 genomes]
rs17012800	0.91[ASN][1000 genomes]
rs17012829	0.98[ASN][1000 genomes]
rs1908475	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2017065	0.88[ASN][1000 genomes]
rs35901544	0.81[AMR][1000 genomes]
rs4327332	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57131555	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58724157	0.91[ASN][1000 genomes]
rs60782093	0.92[ASN][1000 genomes]
rs61578857	0.92[ASN][1000 genomes]
rs6765801	0.90[ASN][1000 genomes]
rs6769167	0.88[ASN][1000 genomes]
rs6792370	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73823472	0.82[ASN][1000 genomes]
rs7612463	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7627380	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9831921	0.82[ASN][1000 genomes]
rs9867046	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][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	nsv834636	chr3:23138653-23301443	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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
5	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

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23283600-23302200	Weak transcription	Left Ventricle	heart
2	chr3:23292200-23298800	Weak transcription	Primary T cells from cord blood	blood
3	chr3:23292800-23304200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:23292800-23306800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr3:23293000-23303800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:23293200-23299400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr3:23294800-23299200	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr3:23295200-23321800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr3:23296000-23300600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr3:23296000-23302000	Weak transcription	Lung	lung
11	chr3:23296400-23302000	Weak transcription	Psoas Muscle	Psoas
12	chr3:23297000-23298800	Enhancers	Colon Smooth Muscle	Colon
13	chr3:23297000-23307000	Weak transcription	Primary B cells from cord blood	blood
14	chr3:23297600-23299000	Enhancers	Brain Hippocampus Middle	brain
15	chr3:23298000-23299000	Enhancers	Liver	Liver
16	chr3:23298000-23299800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr3:23298200-23298800	Enhancers	Brain Substantia Nigra	brain
18	chr3:23298200-23298800	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr3:23298200-23298800	Enhancers	Rectal Smooth Muscle	rectum
20	chr3:23298200-23298800	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr3:23298200-23298800	Enhancers	Thymus	Thymus
22	chr3:23298200-23298800	Enhancers	GM12878-XiMat	blood
23	chr3:23298200-23299000	Enhancers	Primary B cells from peripheral blood	blood
24	chr3:23298200-23299000	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr3:23298200-23299000	Enhancers	Adipose Nuclei	Adipose
26	chr3:23298200-23299000	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr3:23298200-23299000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr3:23298200-23299000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr3:23298200-23299000	Enhancers	A549	lung
30	chr3:23298200-23299800	Enhancers	Brain Cingulate Gyrus	brain
31	chr3:23298400-23298800	Enhancers	Fetal Heart	heart
32	chr3:23298400-23298800	Enhancers	Right Ventricle	heart
33	chr3:23298400-23298800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
34	chr3:23298400-23299200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:23298400-23300000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr3:23298400-23302000	Weak transcription	Pancreas	Pancrea
37	chr3:23298400-23305200	Weak transcription	HSMM	muscle
38	chr3:23298600-23298800	Enhancers	Osteobl	bone
39	chr3:23298600-23299800	Enhancers	Primary neutrophils fromperipheralblood	blood
40	chr3:23298600-23300600	Weak transcription	Brain Angular Gyrus	brain
41	chr3:23298600-23300600	Weak transcription	Right Atrium	heart
42	chr3:23298600-23302200	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links