Variant report

Variant	rs694429
Chromosome Location	chr3:99459669-99459670
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1016914	0.89[YRI][hapmap]
rs1021102	0.88[YRI][hapmap]
rs1021103	1.00[YRI][hapmap]
rs1038294	0.84[ASW][hapmap];1.00[YRI][hapmap]
rs1087198	0.80[YRI][hapmap]
rs1606481	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1607993	0.83[CHD][hapmap];0.83[JPT][hapmap]
rs1630555	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1688766	0.84[ASW][hapmap];1.00[YRI][hapmap]
rs1688771	1.00[YRI][hapmap]
rs1711557	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1857290	0.92[CHB][hapmap];0.94[CHD][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs2452320	0.89[YRI][hapmap]
rs4244711	0.89[YRI][hapmap]
rs4479633	0.89[YRI][hapmap]
rs506186	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs598174	0.83[CHD][hapmap];0.83[JPT][hapmap]
rs629120	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];0.97[GIH][hapmap];0.92[JPT][hapmap];0.92[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6440938	0.89[YRI][hapmap]
rs651511	0.92[CHB][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs668668	0.92[CHB][hapmap];0.94[CHD][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs6809988	0.89[YRI][hapmap]
rs704570	0.92[CHB][hapmap];0.80[YRI][hapmap]
rs704573	0.92[CHB][hapmap]
rs704582	0.84[ASW][hapmap];1.00[YRI][hapmap]
rs704583	0.89[YRI][hapmap]
rs7636447	0.89[YRI][hapmap]
rs792828	0.92[CHB][hapmap];0.92[JPT][hapmap]
rs792829	0.92[CHB][hapmap];0.91[CHD][hapmap];0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs792834	0.92[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs793445	0.89[YRI][hapmap]
rs793460	0.89[YRI][hapmap]
rs793461	0.89[YRI][hapmap]
rs793462	0.89[YRI][hapmap]
rs793463	0.89[YRI][hapmap]
rs793465	0.89[YRI][hapmap]
rs793466	0.89[YRI][hapmap]
rs793467	0.80[YRI][hapmap]
rs793488	0.84[AMR][1000 genomes]
rs793492	0.80[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs793494	0.80[YRI][hapmap]
rs793495	0.80[YRI][hapmap]
rs793496	0.84[ASW][hapmap];1.00[YRI][hapmap]
rs793499	0.84[ASW][hapmap];0.80[CEU][hapmap];1.00[YRI][hapmap]
rs796977	0.80[YRI][hapmap]
rs809415	0.89[YRI][hapmap]
rs812657	0.89[YRI][hapmap]
rs9872871	0.89[YRI][hapmap]

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	nsv877217	chr3:99418950-99496351	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv508231	chr3:99442020-99498951	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs694429	OR5H6	cis	cerebellum	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99440400-99471000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:99441400-99466800	Weak transcription	NH-A	brain
3	chr3:99443400-99471400	Weak transcription	Aorta	Aorta
4	chr3:99449600-99463400	Weak transcription	HUVEC	blood vessel
5	chr3:99450400-99463600	Weak transcription	NHDF-Ad	bronchial
6	chr3:99450400-99463800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:99451000-99460400	Weak transcription	Osteobl	bone
8	chr3:99457400-99459800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr3:99458600-99460200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr3:99458600-99461600	Weak transcription	HSMM	muscle
11	chr3:99458600-99466600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr3:99458600-99466800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:99458600-99470000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:99458600-99470200	Weak transcription	Lung	lung
15	chr3:99458600-99471000	Weak transcription	NHLF	lung
16	chr3:99458600-99471200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:99458600-99472200	Weak transcription	Adipose Nuclei	Adipose
18	chr3:99459400-99460400	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr3:99459600-99460400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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