Variant report

Variant	rs12454164
Chromosome Location	chr18:25690927-25690928
allele	A/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:45)

rs_ID	r²[population]
rs10853682	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11083249	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11083250	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11083252	1.00[JPT][hapmap]
rs11564299	1.00[JPT][hapmap]
rs11564310	1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11564336	1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11564341	1.00[JPT][hapmap]
rs11564381	0.86[ASW][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11872284	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11874384	0.91[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11874478	1.00[JPT][hapmap]
rs12185349	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12453985	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12454769	1.00[ASN][1000 genomes]
rs12457737	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12457781	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12458418	1.00[JPT][hapmap]
rs12458840	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12458872	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12953509	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12956036	1.00[JPT][hapmap]
rs12959867	1.00[JPT][hapmap]
rs12960181	1.00[JPT][hapmap]
rs12969129	1.00[ASN][1000 genomes]
rs1443449	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17446505	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17446547	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17446875	1.00[JPT][hapmap]
rs17468924	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17468987	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17469001	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17469371	1.00[JPT][hapmap]
rs17536472	1.00[JPT][hapmap]
rs1860642	0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1944288	1.00[JPT][hapmap]
rs2067772	0.95[CEU][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2191636	1.00[JPT][hapmap]
rs4800289	1.00[JPT][hapmap]
rs4800842	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6508526	1.00[JPT][hapmap]
rs719723	1.00[JPT][hapmap]
rs8089347	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8091862	1.00[JPT][hapmap]
rs8095341	1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25687200-25699800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr18:25687400-25693000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr18:25687400-25696800	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr18:25687600-25693000	Enhancers	Liver	Liver
5	chr18:25687600-25694200	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr18:25687800-25692400	Enhancers	Fetal Brain Female	brain
7	chr18:25687800-25693000	Enhancers	Brain Germinal Matrix	brain
8	chr18:25688000-25691200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr18:25688000-25691400	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr18:25688000-25691400	Enhancers	Brain Substantia Nigra	brain
11	chr18:25688000-25691600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr18:25688000-25692800	Enhancers	Brain Hippocampus Middle	brain
13	chr18:25688000-25693200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr18:25688200-25693000	Enhancers	Brain Anterior Caudate	brain
15	chr18:25688200-25694000	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr18:25688400-25691400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr18:25688400-25691400	Weak transcription	Fetal Intestine Small	intestine
18	chr18:25688400-25691600	Weak transcription	Fetal Intestine Large	intestine
19	chr18:25688400-25691800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr18:25688400-25692000	Enhancers	HSMM	muscle
21	chr18:25688400-25692200	Enhancers	NH-A	brain
22	chr18:25688400-25693000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr18:25689200-25691000	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr18:25689200-25692000	Enhancers	A549	lung
25	chr18:25689200-25692000	Weak transcription	HepG2	liver
26	chr18:25689400-25691200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr18:25689600-25691000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
28	chr18:25689800-25691000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr18:25689800-25691000	Enhancers	Brain Angular Gyrus	brain
30	chr18:25689800-25691400	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr18:25689800-25691400	Enhancers	Brain Inferior Temporal Lobe	brain
32	chr18:25689800-25691400	Enhancers	Fetal Brain Male	brain
33	chr18:25689800-25691600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr18:25689800-25693000	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr18:25689800-25693000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr18:25689800-25695600	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr18:25690000-25691000	Enhancers	H1 Cell Line	embryonic stem cell
38	chr18:25690000-25691400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr18:25690000-25691400	Enhancers	H9 Cell Line	embryonic stem cell
40	chr18:25690000-25691400	Enhancers	Brain Cingulate Gyrus	brain
41	chr18:25690000-25691600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr18:25690000-25692800	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr18:25690200-25691000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr18:25690200-25691000	Weak transcription	NHLF	lung
45	chr18:25690200-25691200	Enhancers	Right Atrium	heart
46	chr18:25690200-25691400	Enhancers	Aorta	Aorta
47	chr18:25690200-25691400	Enhancers	Left Ventricle	heart
48	chr18:25690200-25691400	Enhancers	Ovary	ovary
49	chr18:25690200-25695000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr18:25690200-25695000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links