Variant report

Variant	rs9566456
Chromosome Location	chr13:40117691-40117692
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10459367	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11841092	0.86[CEU][hapmap]
rs12585456	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17060227	0.86[CEU][hapmap]
rs17060245	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2875330	0.86[JPT][hapmap]
rs4545673	0.86[JPT][hapmap]
rs58418761	0.87[EUR][1000 genomes]
rs58662524	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58918104	0.87[EUR][1000 genomes]
rs59531868	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72621301	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72621302	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72623303	0.92[EUR][1000 genomes]
rs72623305	0.87[EUR][1000 genomes]
rs9315708	1.00[CEU][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9532397	0.86[JPT][hapmap]
rs9532398	0.85[JPT][hapmap]
rs9566452	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9566455	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9566460	1.00[ASW][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap]
rs9576839	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9576844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576845	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576846	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576849	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576850	0.87[CEU][hapmap]
rs9576853	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9576855	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9576856	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs9576857	0.93[EUR][1000 genomes]
rs9576858	0.95[EUR][1000 genomes]
rs9576860	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9576863	0.89[EUR][1000 genomes]
rs9576864	0.87[EUR][1000 genomes]
rs9576867	1.00[CEU][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes]
rs9576868	1.00[CEU][hapmap];0.87[EUR][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	esv2754118	chr13:39347702-40222644	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1054600	chr13:39801283-40545027	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1050137	chr13:40090742-40118499	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:40106800-40124000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr13:40107800-40140200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr13:40111200-40133200	Weak transcription	Aorta	Aorta
4	chr13:40111400-40128200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr13:40111600-40120600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr13:40111600-40128600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr13:40112000-40122400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr13:40113800-40128600	Weak transcription	Ovary	ovary
9	chr13:40114000-40131200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr13:40114200-40125200	Weak transcription	HSMM	muscle
11	chr13:40114400-40136000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr13:40115400-40133200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr13:40115600-40120800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr13:40115600-40133600	Weak transcription	Osteobl	bone
15	chr13:40115800-40120600	Weak transcription	Left Ventricle	heart
16	chr13:40116800-40117800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr13:40116800-40117800	Enhancers	Right Atrium	heart
18	chr13:40117000-40119600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr13:40117000-40130000	Weak transcription	Fetal Muscle Leg	muscle
20	chr13:40117000-40130400	Weak transcription	HSMMtube	muscle
21	chr13:40117200-40119200	Enhancers	Fetal Heart	heart
22	chr13:40117400-40117800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr13:40117400-40118000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr13:40117600-40118200	Enhancers	NHEK	skin
25	chr13:40117600-40126400	Weak transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links