Variant report

Variant	rs1816825
Chromosome Location	chr18:25655611-25655612
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10502507	0.82[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1078501	0.88[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10853680	0.82[CHB][hapmap]
rs10853681	0.82[CHB][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11083245	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11083246	0.81[CEU][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11083248	0.81[CEU][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1122356	1.00[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap]
rs1148376	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11564297	0.88[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11564316	0.88[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11564329	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11564330	0.82[CHB][hapmap]
rs11564332	0.82[CHB][hapmap]
rs11564393	0.82[EUR][1000 genomes]
rs11564396	1.00[CEU][hapmap];0.88[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11564397	0.81[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11564400	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11564405	0.81[CEU][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11564409	0.88[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11564412	0.82[CHB][hapmap]
rs11564413	0.82[CHB][hapmap]
rs11873053	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1220015	0.88[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1220016	0.88[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1220019	0.89[ASN][1000 genomes]
rs1228419	0.88[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1234682	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1373136	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1373138	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1443450	0.82[CHB][hapmap]
rs1443453	0.82[CHB][hapmap];0.80[TSI][hapmap]
rs17446001	0.82[CHB][hapmap]
rs17446316	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17463213	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17463233	0.82[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17463295	0.81[CEU][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17468531	0.88[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17468636	0.82[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17468678	0.81[CEU][hapmap]
rs1808940	0.80[CEU][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1867285	0.82[CHB][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1941180	0.80[CHB][hapmap]
rs1944292	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1944294	0.80[TSI][hapmap]
rs1972934	0.82[CHB][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2053599	0.82[CHB][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2218361	0.82[CHB][hapmap]
rs2920447	0.87[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4598992	0.82[CHB][hapmap];0.84[TSI][hapmap]
rs4800838	0.82[CHB][hapmap];0.80[TSI][hapmap]
rs4800840	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4800841	0.81[CEU][hapmap];0.82[CHB][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs490820	1.00[CHB][hapmap]
rs500643	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs533602	0.94[CHB][hapmap]
rs539075	0.93[CHB][hapmap]
rs565509	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs568575	0.94[CHB][hapmap]
rs576467	1.00[CHB][hapmap]
rs584936	1.00[CHB][hapmap]
rs587526	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs587613	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs597591	1.00[CHB][hapmap];0.86[CHD][hapmap]
rs602819	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs610906	0.95[ASN][1000 genomes]
rs614966	1.00[CHB][hapmap];0.86[CHD][hapmap]
rs623234	1.00[CHB][hapmap];0.89[CHD][hapmap]
rs643555	0.94[CHB][hapmap];0.89[CHD][hapmap]
rs647733	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs656642	1.00[CHB][hapmap]
rs665651	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs665781	1.00[CHB][hapmap];0.89[CHD][hapmap]
rs673008	1.00[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap]
rs683457	0.95[ASN][1000 genomes]
rs694943	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7230771	0.88[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7237382	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs72639459	0.93[AMR][1000 genomes]
rs8087457	0.81[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap]
rs8087860	0.81[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8091314	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8091763	0.82[CHB][hapmap]
rs8092004	0.82[CHB][hapmap]
rs894679	0.81[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9635986	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9789154	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9789221	0.82[CHB][hapmap];0.80[MKK][hapmap];0.92[TSI][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]

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	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25645000-25658200	Weak transcription	Fetal Brain Female	brain
2	chr18:25646200-25666400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr18:25649600-25661400	Enhancers	Fetal Heart	heart
4	chr18:25650600-25666800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr18:25651200-25661800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr18:25651600-25665200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr18:25651800-25655800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr18:25652400-25657000	Weak transcription	HUVEC	blood vessel
9	chr18:25652400-25659600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr18:25652400-25659600	Weak transcription	Right Atrium	heart
11	chr18:25652600-25659600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr18:25652600-25661800	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr18:25652600-25663800	Weak transcription	Right Ventricle	heart
14	chr18:25653200-25657200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr18:25653400-25656200	Enhancers	HepG2	liver
16	chr18:25654000-25656800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr18:25654000-25666000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr18:25654400-25656800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr18:25654400-25660000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr18:25654600-25656000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr18:25654600-25657800	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr18:25655000-25656000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr18:25655000-25656000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr18:25655000-25656200	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr18:25655000-25656200	Enhancers	Brain Anterior Caudate	brain
26	chr18:25655000-25656200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr18:25655000-25656400	Enhancers	Muscle Satellite Cultured Cells	--
28	chr18:25655000-25656400	Enhancers	Osteobl	bone
29	chr18:25655000-25657200	Enhancers	Brain Hippocampus Middle	brain
30	chr18:25655200-25655800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr18:25655200-25655800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr18:25655200-25655800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr18:25655200-25655800	Enhancers	Brain Germinal Matrix	brain
34	chr18:25655200-25655800	Flanking Active TSS	A549	lung
35	chr18:25655200-25656000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr18:25655200-25656200	Enhancers	HUES6 Cell Line	embryonic stem cell
37	chr18:25655200-25656200	Enhancers	Brain Angular Gyrus	brain
38	chr18:25655200-25656200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
39	chr18:25655200-25656200	Enhancers	Placenta Amnion	Placenta Amnion
40	chr18:25655200-25656200	Enhancers	NH-A	brain
41	chr18:25655200-25657400	Enhancers	Brain Cingulate Gyrus	brain
42	chr18:25655200-25657400	Enhancers	Brain Inferior Temporal Lobe	brain
43	chr18:25655200-25657400	Enhancers	Brain Substantia Nigra	brain
44	chr18:25655400-25655800	Enhancers	H9 Cell Line	embryonic stem cell
45	chr18:25655400-25656000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr18:25655400-25657600	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr18:25655600-25656000	Enhancers	HSMM	muscle
48	chr18:25655600-25656200	Enhancers	HSMMtube	muscle
49	chr18:25655600-25656800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr18:25655600-25657400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links