Variant report

Variant	rs12420107
Chromosome Location	chr11:7997397-7997398
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11041703	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11041704	1.00[ASN][1000 genomes]
rs11041705	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12417944	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421289	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1397596	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1606069	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2136906	0.93[CEU][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4548609	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4758263	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs56071931	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56391804	1.00[ASN][1000 genomes]
rs56392532	1.00[ASN][1000 genomes]
rs57424199	1.00[ASN][1000 genomes]
rs61879577	1.00[ASN][1000 genomes]
rs66473380	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67181930	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67238148	1.00[ASN][1000 genomes]
rs67876487	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73412938	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73412945	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73412998	1.00[ASN][1000 genomes]
rs7951923	1.00[CHB][hapmap];1.00[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12420107	OR51T1	cis	parietal	SCAN
rs12420107	NRIP3	cis	parietal	SCAN
rs12420107	LOC339799	trans	multi-tissue	Pritchard

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:7987400-7998800	Weak transcription	NH-A	brain
2	chr11:7990000-7997400	Weak transcription	NHLF	lung
3	chr11:7990000-7998200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr11:7990200-7998000	Weak transcription	Placenta	Placenta
5	chr11:7991600-7998600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:7992000-7998800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr11:7992400-7998800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr11:7992400-7998800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr11:7992800-7999000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr11:7993200-7998800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr11:7994600-7997400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr11:7995200-7998000	Weak transcription	Osteobl	bone
13	chr11:7996200-7997600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr11:7996200-8000400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr11:7996200-8000400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr11:7996200-8000600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr11:7996400-7998800	Enhancers	HSMM	muscle
18	chr11:7996600-7998600	Weak transcription	Hela-S3	cervix
19	chr11:7996600-7998800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr11:7996600-7999000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr11:7996600-8000200	Weak transcription	Lung	lung
22	chr11:7996800-7998000	Weak transcription	NHEK	skin
23	chr11:7996800-7998800	Weak transcription	HSMMtube	muscle
24	chr11:7997000-7998600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr11:7997000-7998800	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr11:7997000-8008200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr11:7997000-8008800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr11:7997200-7997600	Weak transcription	HMEC	breast
29	chr11:7997200-7998600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr11:7997200-7998800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr11:7997200-7998800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr11:7997200-8000800	Enhancers	NHDF-Ad	bronchial

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