Variant report

Variant	rs668262
Chromosome Location	chr18:8328958-8328959
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11872468	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11875736	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16953244	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16953299	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs16953309	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs16953319	0.80[ASN][1000 genomes]
rs16953340	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16953349	1.00[CEU][hapmap]
rs2000643	1.00[CEU][hapmap]
rs2446498	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2446499	0.82[ASN][1000 genomes]
rs2446503	0.82[EUR][1000 genomes]
rs2509542	0.86[YRI][hapmap]
rs2509543	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35933807	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4798629	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4798630	0.91[YRI][hapmap];0.81[AFR][1000 genomes]
rs55653524	0.82[ASN][1000 genomes]
rs57165119	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57486401	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58102861	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs592535	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs59726215	0.84[ASN][1000 genomes]
rs598149	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs603476	0.82[EUR][1000 genomes]
rs606954	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs613113	1.00[CEU][hapmap]
rs62089873	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62089874	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62089877	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62089899	0.84[ASN][1000 genomes]
rs624559	0.82[ASN][1000 genomes]
rs635416	1.00[CEU][hapmap]
rs652740	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs653652	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs656568	1.00[CEU][hapmap]
rs665525	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs669168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs681383	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs685266	0.82[EUR][1000 genomes]
rs694406	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs73396032	0.83[EUR][1000 genomes]
rs73396034	0.87[EUR][1000 genomes]
rs8090276	0.86[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534374	chr18:7438812-8412546	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv458018	chr18:8110805-8645907	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv576426	chr18:8110805-8645907	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1057288	chr18:8218725-8351340	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv543639	chr18:8218725-8351340	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv3351324	chr18:8250514-8405140	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1058445	chr18:8270681-8421249	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:8289200-8329400	Weak transcription	Fetal Muscle Leg	muscle
2	chr18:8294200-8341400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr18:8298400-8329400	Weak transcription	Aorta	Aorta
4	chr18:8319800-8341600	Weak transcription	Adipose Nuclei	Adipose
5	chr18:8320400-8339400	Weak transcription	Right Ventricle	heart
6	chr18:8320800-8357200	Weak transcription	Thymus	Thymus
7	chr18:8321000-8333800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr18:8321200-8341400	Weak transcription	Lung	lung
9	chr18:8323600-8333800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr18:8325000-8334000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr18:8325800-8341200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr18:8327000-8329600	Enhancers	Fetal Heart	heart
13	chr18:8327000-8329600	Enhancers	Skeletal Muscle Male	skeletal muscle
14	chr18:8327000-8330000	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr18:8327200-8329000	Enhancers	Stomach Smooth Muscle	stomach
16	chr18:8327200-8330000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr18:8327400-8329000	Enhancers	Fetal Stomach	stomach
18	chr18:8327400-8329200	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr18:8327400-8329200	Enhancers	A549	lung
20	chr18:8327400-8329400	Enhancers	Colon Smooth Muscle	Colon
21	chr18:8327400-8329600	Enhancers	Fetal Lung	lung
22	chr18:8327400-8329800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr18:8327400-8329800	Enhancers	Osteobl	bone
24	chr18:8327400-8330400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr18:8327400-8330800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr18:8327600-8339400	Weak transcription	Ovary	ovary
27	chr18:8327600-8339600	Weak transcription	Psoas Muscle	Psoas
28	chr18:8327800-8329000	Weak transcription	Stomach Mucosa	stomach
29	chr18:8327800-8339400	Weak transcription	Left Ventricle	heart
30	chr18:8328000-8329000	Weak transcription	NHLF	lung
31	chr18:8328000-8342600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr18:8328200-8329600	Enhancers	HSMMtube	muscle
33	chr18:8328400-8329800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr18:8328400-8329800	Enhancers	Duodenum Mucosa	Duodenum
35	chr18:8328600-8329800	Enhancers	Hela-S3	cervix
36	chr18:8328600-8329800	Enhancers	HepG2	liver
37	chr18:8328600-8329800	Enhancers	NHDF-Ad	bronchial
38	chr18:8328800-8329200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr18:8328800-8329200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr18:8328800-8329600	Enhancers	HUVEC	blood vessel
41	chr18:8328800-8329600	Enhancers	NH-A	brain
42	chr18:8328800-8329800	Enhancers	Muscle Satellite Cultured Cells	--
43	chr18:8328800-8329800	Enhancers	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links