Variant report

Variant	rs3934772
Chromosome Location	chr1:159754498-159754499
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11591079	1.00[CHB][hapmap]
rs12067754	0.98[EUR][1000 genomes]
rs1320570	1.00[CHB][hapmap]
rs17427209	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17467492	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2789415	1.00[CHB][hapmap]
rs2789416	1.00[CHB][hapmap]
rs2789417	1.00[CHB][hapmap]
rs2789418	1.00[CHB][hapmap]
rs2820579	1.00[CHB][hapmap]
rs2820584	1.00[CHB][hapmap]
rs2840583	1.00[CHB][hapmap]
rs2840588	1.00[CHB][hapmap]
rs3001288	1.00[CHB][hapmap]
rs3934773	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3934775	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6662675	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs6662918	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6686214	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs876538	1.00[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005195	chr1:159452759-159910337	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	90 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:159751400-159756800	Weak transcription	Aorta	Aorta
2	chr1:159751400-159760000	Weak transcription	Placenta	Placenta
3	chr1:159751600-159756800	Weak transcription	Ovary	ovary
4	chr1:159751800-159756400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:159752000-159754600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr1:159752000-159755400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr1:159752000-159756400	Weak transcription	NHEK	skin
8	chr1:159752000-159756600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:159752000-159756600	Weak transcription	Fetal Muscle Leg	muscle
10	chr1:159752000-159756600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr1:159752000-159757000	Weak transcription	HMEC	breast
12	chr1:159752000-159760000	Weak transcription	Fetal Intestine Large	intestine
13	chr1:159752000-159760200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr1:159752200-159755400	Weak transcription	Colonic Mucosa	Colon
15	chr1:159752200-159756400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr1:159752400-159755200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr1:159752400-159756600	Weak transcription	Esophagus	oesophagus
18	chr1:159752600-159760400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr1:159752800-159755600	Weak transcription	Lung	lung
20	chr1:159752800-159756000	Weak transcription	Pancreas	Pancrea
21	chr1:159752800-159760000	Weak transcription	Fetal Intestine Small	intestine
22	chr1:159753000-159754600	Enhancers	iPS-18 Cell Line	embryonic stem cell
23	chr1:159753000-159755600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr1:159753000-159756000	Weak transcription	HUVEC	blood vessel
25	chr1:159753000-159756400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:159753400-159754600	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr1:159753400-159754800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr1:159753600-159754600	Weak transcription	Brain Hippocampus Middle	brain
29	chr1:159753600-159754800	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr1:159753600-159755000	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr1:159753600-159756200	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr1:159753800-159756000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr1:159754200-159754800	Enhancers	H9 Cell Line	embryonic stem cell
34	chr1:159754400-159754600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
35	chr1:159754400-159754600	Enhancers	Brain Cingulate Gyrus	brain
36	chr1:159754400-159756800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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