Variant report

Variant	rs1296337
Chromosome Location	chr18:8068906-8068907
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10153331	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10468772	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10853359	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11081352	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11081354	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11081355	0.81[EUR][1000 genomes]
rs11081356	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11081358	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12185338	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12956937	0.82[EUR][1000 genomes]
rs12959661	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1296003	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1297388	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1298292	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1596383	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1788069	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1942958	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1942959	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1942960	0.80[AMR][1000 genomes]
rs2156236	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34398246	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs478396	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4798607	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs484494	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs486607	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs488952	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs490065	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs491890	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs492841	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs493221	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs499764	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs5000485	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs502843	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs503388	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs506248	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs507445	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs511993	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs545910	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs552448	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs561488	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs561613	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs567523	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs575538	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs576519	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs583909	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs611022	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs615129	0.81[EUR][1000 genomes]
rs616698	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs618104	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs618466	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs619379	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs620346	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs623258	0.83[EUR][1000 genomes]
rs629391	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs630924	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs631838	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs635157	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs641089	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6417046	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs649598	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6506542	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6506545	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6506546	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs658110	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs674823	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs680016	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs681491	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs693630	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7234055	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs8082776	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8088126	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8088354	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8093262	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9807298	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9965286	0.82[AMR][1000 genomes];0.81[EUR][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	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	nsv1062911	chr18:7561991-8088274	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv543637	chr18:7561991-8088274	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1064345	chr18:7562051-8088274	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv543638	chr18:7562051-8088274	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 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	chr18:8045800-8072600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr18:8047000-8073600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr18:8052600-8078200	Weak transcription	Ovary	ovary
4	chr18:8052600-8105200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr18:8063600-8073800	Weak transcription	Pancreas	Pancrea
6	chr18:8063600-8074000	Weak transcription	Liver	Liver
7	chr18:8064800-8069600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr18:8065600-8069200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr18:8065600-8069600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr18:8065600-8073600	Weak transcription	Left Ventricle	heart
11	chr18:8065600-8101600	Weak transcription	Aorta	Aorta
12	chr18:8065800-8069200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr18:8066200-8094000	Weak transcription	Hela-S3	cervix
14	chr18:8067000-8085800	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr18:8067400-8069400	Weak transcription	A549	lung
16	chr18:8067400-8110200	Weak transcription	Right Ventricle	heart
17	chr18:8067600-8094800	Weak transcription	NHDF-Ad	bronchial
18	chr18:8067800-8069600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr18:8067800-8069600	Weak transcription	Adipose Nuclei	Adipose
20	chr18:8067800-8081400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr18:8067800-8081600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr18:8068000-8070800	Weak transcription	HepG2	liver
23	chr18:8068000-8072000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr18:8068000-8078800	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr18:8068000-8084000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr18:8068000-8085800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr18:8068000-8092400	Weak transcription	Thymus	Thymus
28	chr18:8068000-8094800	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr18:8068000-8100000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr18:8068400-8072000	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr18:8068400-8078200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr18:8068400-8095200	Weak transcription	Lung	lung
33	chr18:8068400-8101600	Weak transcription	Fetal Stomach	stomach
34	chr18:8068400-8102400	Weak transcription	Fetal Thymus	thymus
35	chr18:8068600-8124800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr18:8068800-8071600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr18:8068800-8073000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr18:8068800-8084400	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr18:8068800-8084800	Weak transcription	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links