Variant report

Variant	rs2458456
Chromosome Location	chr3:99415358-99415359
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr3:99415332-99415770	MCF-7	breast:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
2	CEBPB	chr3:99415353-99415738	K562	blood:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
3	CEBPB	chr3:99415334-99415669	ECC-1	luminal epithelium:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
4	CEBPB	chr3:99415344-99415715	A549	lung:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
5	CEBPB	chr3:99415355-99415729	A549	lung:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
6	POLR2A	chr3:99415068-99415845	HUVEC	blood vessel:	n/a	n/a
7	POLR2A	chr3:99415320-99415417	Gliobla	brain:	n/a	n/a
8	CEBPB	chr3:99415358-99415730	Hela-S3	cervix:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
9	CEBPB	chr3:99415307-99415804	A549	lung:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549
10	CEBPB	chr3:99415348-99415663	MCF-7	breast:	n/a	chr3:99415540-99415549 chr3:99415540-99415549 chr3:99415539-99415550 chr3:99415540-99415549

Variant related genes	Relation type
ENSG00000263810	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1578796	0.84[CHB][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs1578797	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1708168	0.98[ASN][1000 genomes]
rs1717608	0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1717610	0.98[ASN][1000 genomes]
rs486688	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs596300	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs621061	0.96[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.91[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs639355	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs641461	0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs681819	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2458456	OR5H6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99394000-99426600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr3:99397600-99419200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:99397600-99432000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:99397800-99418000	Weak transcription	NHLF	lung
5	chr3:99403600-99424800	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:99403800-99418200	Weak transcription	Ovary	ovary
7	chr3:99407000-99419200	Weak transcription	Adipose Nuclei	Adipose
8	chr3:99407600-99418800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:99409200-99418800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr3:99410200-99418400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr3:99411400-99439600	Weak transcription	NHEK	skin
12	chr3:99411800-99426000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:99413000-99423400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:99413600-99422800	Weak transcription	HMEC	breast
15	chr3:99413800-99417600	Weak transcription	NHDF-Ad	bronchial
16	chr3:99413800-99418400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:99413800-99423800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:99414200-99417400	Strong transcription	Osteobl	bone
19	chr3:99414400-99418600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:99414800-99415400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:99414800-99415600	Strong transcription	Muscle Satellite Cultured Cells	--
22	chr3:99415000-99415600	Strong transcription	NH-A	brain
23	chr3:99415200-99415400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:99415200-99415600	ZNF genes & repeats	Aorta	Aorta
25	chr3:99415200-99415600	Genic enhancers	HUVEC	blood vessel
26	chr3:99415200-99415800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr3:99415200-99421400	Strong transcription	HSMM	muscle

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