Variant report

Variant	rs3134133
Chromosome Location	chr8:107641124-107641125
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:107639957..107642921-chr8:107668793..107673029,5	MCF-7	breast:
2	chr8:107639670..107643693-chr8:107648577..107651527,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164830	Chromatin interaction
ENSG00000253582	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10093154	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1350984	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2045787	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2126582	0.84[GIH][hapmap]
rs2346131	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28502602	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3101523	0.81[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3101524	0.85[ASN][1000 genomes]
rs3101525	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3101527	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3101529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3101530	0.82[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs3101536	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3101537	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3101540	0.85[EUR][1000 genomes]
rs3101541	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs3110425	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3110431	0.89[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3110437	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3110774	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3132802	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3132804	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3134118	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3134120	0.87[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3134122	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3134123	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3134124	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3134134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3134135	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3134136	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3134137	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3134138	0.92[CHD][hapmap];0.81[JPT][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3134139	0.92[CHD][hapmap];0.81[JPT][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3134140	0.81[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs56063590	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7838459	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][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	nsv533134	chr8:107307812-107670002	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv831419	chr8:107624709-107827801	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3134133	OXR1	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:107601600-107669600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr8:107620400-107653400	Weak transcription	Aorta	Aorta
3	chr8:107630600-107643400	Weak transcription	Gastric	stomach
4	chr8:107630600-107657200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr8:107636800-107657400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr8:107637000-107641200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr8:107637200-107648400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr8:107637400-107641200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr8:107637400-107642600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr8:107638000-107642200	Weak transcription	Stomach Mucosa	stomach
11	chr8:107639800-107643200	Enhancers	HepG2	liver
12	chr8:107640800-107642800	Enhancers	Fetal Lung	lung
13	chr8:107641000-107641400	Enhancers	Fetal Intestine Large	intestine
14	chr8:107641000-107641400	Enhancers	Fetal Intestine Small	intestine
15	chr8:107641000-107641800	Flanking Active TSS	Liver	Liver
16	chr8:107641000-107642000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr8:107641000-107643200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links