Variant report

Variant	rs7242207
Chromosome Location	chr18:13313029-13313030
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10084046	0.87[ASN][1000 genomes]
rs11080642	0.88[ASN][1000 genomes]
rs11662722	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12959004	0.87[ASN][1000 genomes]
rs12959077	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12959091	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12961452	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16940343	0.87[ASN][1000 genomes]
rs16940349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1840267	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1869496	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1869497	0.93[EUR][1000 genomes]
rs2085048	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2085050	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2187501	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2187502	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2276392	0.82[EUR][1000 genomes]
rs2867874	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2867875	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2867876	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4570934	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4570935	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4606791	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55882226	0.85[EUR][1000 genomes]
rs6505798	0.90[ASN][1000 genomes]
rs6505802	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6505803	0.87[ASN][1000 genomes]
rs7226901	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7230643	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7231366	0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7231701	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7234501	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7234675	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7236152	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7236934	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7237181	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7241109	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7241410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7241438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7242024	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7242140	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7242230	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8087505	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8094197	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9303783	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs930797	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs930798	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs930799	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs949259	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9952682	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9953274	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9954359	0.82[EUR][1000 genomes]
rs9963572	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv2209	chr18:13276410-13316570	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv531246	chr18:13298774-14082028	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13285000-13316200	Weak transcription	Aorta	Aorta
2	chr18:13298800-13314600	Weak transcription	Fetal Intestine Small	intestine
3	chr18:13303000-13314400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr18:13303200-13314400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr18:13303200-13314600	Weak transcription	Colonic Mucosa	Colon
6	chr18:13303200-13316600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr18:13303200-13318600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr18:13303200-13318600	Weak transcription	Right Atrium	heart
9	chr18:13303400-13314600	Weak transcription	Fetal Lung	lung
10	chr18:13303400-13314600	Weak transcription	Fetal Stomach	stomach
11	chr18:13303600-13318600	Weak transcription	Colon Smooth Muscle	Colon
12	chr18:13304400-13313200	Weak transcription	Spleen	Spleen
13	chr18:13304600-13315000	Weak transcription	Brain Hippocampus Middle	brain
14	chr18:13305000-13315000	Weak transcription	Brain Anterior Caudate	brain
15	chr18:13306800-13315800	Weak transcription	Adipose Nuclei	Adipose
16	chr18:13308600-13314400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr18:13308600-13314600	Weak transcription	Brain Germinal Matrix	brain
18	chr18:13308800-13313200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr18:13309000-13315800	Weak transcription	Small Intestine	intestine
20	chr18:13309800-13315800	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr18:13309800-13315800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr18:13310200-13316000	Weak transcription	Fetal Heart	heart
23	chr18:13310600-13313200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr18:13310600-13316400	Weak transcription	Left Ventricle	heart
25	chr18:13310600-13318600	Weak transcription	Right Ventricle	heart
26	chr18:13311800-13314000	Enhancers	Thymus	Thymus
27	chr18:13311800-13315800	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr18:13312000-13313200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
29	chr18:13312400-13313600	Strong transcription	Stomach Smooth Muscle	stomach
30	chr18:13312400-13314400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr18:13312400-13314600	Enhancers	Primary hematopoietic stem cells	blood
32	chr18:13312400-13314800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr18:13312400-13315200	Enhancers	Primary T cells from cord blood	blood
34	chr18:13312600-13313200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr18:13312600-13313400	Strong transcription	Fetal Brain Female	brain
36	chr18:13312600-13313600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
37	chr18:13312600-13313800	Enhancers	Dnd41	blood
38	chr18:13312600-13314200	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr18:13312600-13314200	Enhancers	Fetal Thymus	thymus
40	chr18:13312600-13315000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr18:13312600-13315200	Enhancers	Primary T cells fromperipheralblood	blood
42	chr18:13312800-13313200	Enhancers	Primary T killer memory cells from peripheral blood	blood
43	chr18:13312800-13313600	Flanking Active TSS	Liver	Liver
44	chr18:13312800-13314400	Enhancers	Primary T helper naive cells from peripheral blood	blood
45	chr18:13312800-13314600	Weak transcription	Esophagus	oesophagus
46	chr18:13313000-13313400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
47	chr18:13313000-13313400	Flanking Active TSS	HepG2	liver
48	chr18:13313000-13313600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
49	chr18:13313000-13313800	Enhancers	Primary hematopoietic stem cells short term culture	blood
50	chr18:13313000-13313800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links