Variant report

Variant	rs16953340
Chromosome Location	chr18:8347901-8347902
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs16953244	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs16953299	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16953309	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16953319	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16953329	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16953349	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2000643	1.00[CEU][hapmap]
rs2446498	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2446503	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2509546	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs592535	1.00[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs59726215	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs598149	1.00[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs603371	0.83[EUR][1000 genomes]
rs603476	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs603810	0.92[EUR][1000 genomes]
rs606954	1.00[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs611709	0.92[EUR][1000 genomes]
rs613113	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs62085039	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62085040	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62085041	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62085047	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62085048	0.98[EUR][1000 genomes]
rs62089873	0.85[EUR][1000 genomes]
rs62089874	0.83[EUR][1000 genomes]
rs62089877	0.83[EUR][1000 genomes]
rs62089899	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs635416	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs652740	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs653652	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs656568	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs665525	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs668262	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs669168	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs681383	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs685266	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs694406	1.00[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8090276	0.89[JPT][hapmap]

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:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:8320800-8357200	Weak transcription	Thymus	Thymus
2	chr18:8329600-8358200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr18:8329800-8365200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr18:8340200-8365600	Weak transcription	Psoas Muscle	Psoas
5	chr18:8341600-8348800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr18:8342000-8348200	Weak transcription	Fetal Intestine Large	intestine
7	chr18:8342000-8359200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr18:8342000-8362400	Weak transcription	Fetal Muscle Trunk	muscle
9	chr18:8342200-8348200	Weak transcription	Pancreas	Pancrea
10	chr18:8342200-8349000	Weak transcription	Hela-S3	cervix
11	chr18:8342200-8350200	Weak transcription	Fetal Muscle Leg	muscle
12	chr18:8342200-8354600	Weak transcription	Gastric	stomach
13	chr18:8342200-8354600	Weak transcription	Left Ventricle	heart
14	chr18:8342200-8355200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr18:8342200-8359600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr18:8342200-8366800	Weak transcription	Adipose Nuclei	Adipose
17	chr18:8342200-8367400	Weak transcription	Aorta	Aorta
18	chr18:8342600-8348000	Weak transcription	Osteobl	bone
19	chr18:8342600-8349400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr18:8342600-8349600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr18:8342600-8350400	Weak transcription	HSMMtube	muscle
22	chr18:8342600-8366400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr18:8342800-8357600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr18:8343000-8351800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr18:8343800-8349800	Weak transcription	HepG2	liver
26	chr18:8344000-8348000	Weak transcription	Fetal Kidney	kidney
27	chr18:8344000-8353800	Weak transcription	Right Ventricle	heart
28	chr18:8344200-8356600	Weak transcription	A549	lung
29	chr18:8344200-8367000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr18:8345400-8358200	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr18:8346000-8348400	Strong transcription	Fetal Stomach	stomach
32	chr18:8346400-8349800	Weak transcription	Lung	lung
33	chr18:8346400-8366800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr18:8346600-8358200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr18:8346600-8358800	Weak transcription	Ovary	ovary
36	chr18:8346800-8351000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr18:8347000-8350400	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr18:8347400-8348000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr18:8347400-8348200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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