Variant report

Variant	rs12672819
Chromosome Location	chr7:146114997-146114998
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1005387	0.81[GIH][hapmap];0.89[MEX][hapmap]
rs1011485	0.86[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1011486	0.86[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap]
rs10255515	0.81[CEU][hapmap];0.93[CHB][hapmap];0.96[CHD][hapmap];0.93[JPT][hapmap]
rs10267655	0.86[CEU][hapmap];0.93[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap]
rs10269958	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs10275248	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs10487936	0.90[CEU][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12667234	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12673296	0.85[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.90[TSI][hapmap];0.82[YRI][hapmap]
rs12703814	0.91[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13237342	0.90[CEU][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs13247443	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1358078	0.98[EUR][1000 genomes]
rs1526146	0.86[CEU][hapmap];0.85[CHB][hapmap];0.93[JPT][hapmap]
rs1526147	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1526154	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs1526158	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.97[TSI][hapmap]
rs1526159	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1526161	0.93[CHB][hapmap]
rs1558412	0.95[CEU][hapmap];0.87[CHB][hapmap];0.93[EUR][1000 genomes]
rs1639432	0.87[CHB][hapmap]
rs1639437	1.00[CEU][hapmap];0.85[CHB][hapmap];0.97[EUR][1000 genomes]
rs1639438	0.87[CHB][hapmap]
rs1639446	0.95[CEU][hapmap];1.00[CHB][hapmap]
rs1639460	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap]
rs1639465	0.95[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs1639470	0.95[CEU][hapmap];1.00[CHB][hapmap]
rs1639471	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.85[MEX][hapmap];0.88[TSI][hapmap]
rs1639480	0.85[CEU][hapmap];0.85[MEX][hapmap];0.82[TSI][hapmap]
rs1639516	1.00[CEU][hapmap];0.93[CHB][hapmap]
rs17170068	0.85[MEX][hapmap]
rs17170106	0.86[CEU][hapmap];0.86[CHD][hapmap];0.93[JPT][hapmap]
rs1718070	1.00[CHB][hapmap]
rs1718093	1.00[CHB][hapmap]
rs1718099	0.85[EUR][1000 genomes]
rs1724472	0.93[CHB][hapmap]
rs1724497	0.95[CEU][hapmap];0.87[CHB][hapmap];0.93[EUR][1000 genomes]
rs1724498	0.89[CEU][hapmap];0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs1724506	0.97[EUR][1000 genomes]
rs1724528	0.93[CHB][hapmap];0.87[CHD][hapmap]
rs17505462	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs17583547	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs2021559	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[CHD][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs2030846	0.90[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap]
rs2058377	0.85[CEU][hapmap]
rs2109696	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2535749	0.93[EUR][1000 genomes]
rs2535750	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[TSI][hapmap]
rs2535753	0.84[EUR][1000 genomes]
rs2535754	0.90[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2888335	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs34079621	0.90[CEU][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4109977	0.86[CEU][hapmap];0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs4618611	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs4725692	0.90[CEU][hapmap]
rs4725694	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs4726785	0.81[CEU][hapmap]
rs6464758	0.86[CEU][hapmap];0.93[CHB][hapmap];0.82[EUR][1000 genomes]
rs6464759	1.00[CEU][hapmap];0.93[CHB][hapmap];0.99[EUR][1000 genomes]
rs6951145	0.85[CEU][hapmap];0.93[CHB][hapmap];0.85[EUR][1000 genomes]
rs6955314	0.83[EUR][1000 genomes]
rs6978796	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes]
rs700273	0.81[CHD][hapmap]
rs73164014	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7776593	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7779185	0.86[CEU][hapmap];0.93[CHB][hapmap]
rs7780801	0.86[CEU][hapmap];0.93[CHB][hapmap];0.84[EUR][1000 genomes]
rs7781575	0.85[ASW][hapmap];1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs7782757	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7784672	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs7784977	0.86[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap]
rs7790657	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7794014	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs7803018	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7803472	1.00[CEU][hapmap];0.87[CHB][hapmap];0.97[EUR][1000 genomes]
rs7805539	0.86[CEU][hapmap];0.93[CHB][hapmap]
rs802191	0.93[CHB][hapmap]
rs802194	0.86[CEU][hapmap];0.84[EUR][1000 genomes]
rs802195	0.84[EUR][1000 genomes]
rs802196	0.81[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs802200	0.86[CHB][hapmap];0.84[CHD][hapmap]
rs802203	0.93[CHB][hapmap]
rs9771006	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv889384	chr7:145541783-146239545	Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1020950	chr7:145683419-146264304	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv889387	chr7:145903862-146239545	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv533345	chr7:145934546-146134958	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv889389	chr7:145998111-146121539	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv917027	chr7:146069317-146194011	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv1024679	chr7:146091479-146248268	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1017138	chr7:146102286-146318562	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv889390	chr7:146111034-146239545	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12672819	OR6B1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:146114000-146115200	Enhancers	Brain Germinal Matrix	brain

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