Variant report

Variant	rs6468852
Chromosome Location	chr8:103975989-103975990
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs16869913	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1806640	0.86[ASN][1000 genomes]
rs1913026	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2892492	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4452771	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs68090954	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72667266	0.96[ASN][1000 genomes]
rs72667268	0.96[ASN][1000 genomes]
rs72667270	0.93[ASN][1000 genomes]
rs72667272	0.93[ASN][1000 genomes]
rs7817690	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7827655	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7831710	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7837635	0.86[AFR][1000 genomes]
rs7840373	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7846015	0.93[ASN][1000 genomes]
rs884397	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs884398	0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9693082	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv33118	chr8:103358567-104068172	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv465752	chr8:103953990-103979714	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv611823	chr8:103953990-103979714	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv1803798	chr8:103974458-103987922	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Alzheimer's disease (late onset)	22881374	GWAS catalog

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6468852	OXR1	cis	parietal	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:103974000-103978000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr8:103974200-103977600	Weak transcription	Adipose Nuclei	Adipose
3	chr8:103974200-103977800	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr8:103974200-103977800	Weak transcription	Brain Anterior Caudate	brain
5	chr8:103974200-103979800	Weak transcription	Fetal Muscle Leg	muscle
6	chr8:103974400-103976000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr8:103974400-103976000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr8:103974400-103976000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr8:103974400-103976000	Weak transcription	Placenta	Placenta
10	chr8:103974400-103976000	Weak transcription	Ovary	ovary
11	chr8:103974400-103976000	Weak transcription	Pancreas	Pancrea
12	chr8:103974400-103976200	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr8:103974400-103976400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr8:103974400-103977800	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr8:103974400-103979400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr8:103974400-103980400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr8:103974400-103980800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr8:103974400-103989200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr8:103974400-103989200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr8:103974600-103976000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr8:103974800-103976000	Weak transcription	Fetal Kidney	kidney
22	chr8:103974800-103976000	Weak transcription	Thymus	Thymus
23	chr8:103974800-103976200	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr8:103974800-103978600	Weak transcription	Right Atrium	heart
25	chr8:103974800-103982200	Weak transcription	GM12878-XiMat	blood
26	chr8:103975000-103980400	Weak transcription	Brain Cingulate Gyrus	brain
27	chr8:103975800-103976200	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links