Variant report

Variant	rs1639481
Chromosome Location	chr7:146093083-146093084
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1011486	0.84[JPT][hapmap]
rs10238194	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.88[YRI][hapmap]
rs10243810	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10249426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10262298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10269958	0.84[JPT][hapmap]
rs10487936	1.00[CHB][hapmap]
rs12667234	0.80[CHB][hapmap]
rs12670728	0.99[ASN][1000 genomes]
rs13237342	1.00[CHB][hapmap];0.84[CHD][hapmap]
rs1358084	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1526154	0.84[JPT][hapmap]
rs1526161	1.00[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1558412	0.84[JPT][hapmap]
rs1639432	0.91[CEU][hapmap];0.84[JPT][hapmap]
rs1639437	0.84[JPT][hapmap]
rs1639438	0.92[CEU][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes]
rs1639446	0.84[JPT][hapmap]
rs1639470	0.84[JPT][hapmap]
rs1639471	0.84[JPT][hapmap]
rs1639477	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1639480	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.99[ASN][1000 genomes]
rs1639482	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1639483	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1639484	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1639516	0.84[JPT][hapmap]
rs17170068	0.83[MEX][hapmap]
rs1718070	1.00[CEU][hapmap];0.84[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1718076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1718083	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1718093	0.92[CEU][hapmap];0.84[JPT][hapmap]
rs1724472	0.83[CEU][hapmap];0.84[JPT][hapmap]
rs1724497	0.84[JPT][hapmap]
rs1724498	0.83[JPT][hapmap]
rs1724507	0.82[AMR][1000 genomes]
rs1724528	1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1724532	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17505462	0.96[CEU][hapmap]
rs17583547	0.91[CEU][hapmap]
rs1860684	0.95[MEX][hapmap]
rs2021559	0.84[JPT][hapmap]
rs2058375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2058376	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2058377	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2109695	0.99[ASN][1000 genomes]
rs2372492	0.99[ASN][1000 genomes]
rs2535750	0.84[JPT][hapmap]
rs2535754	0.86[CHB][hapmap]
rs2888335	0.84[JPT][hapmap]
rs34079621	1.00[CHB][hapmap];0.89[CHD][hapmap]
rs34086340	0.99[ASN][1000 genomes]
rs34137151	0.99[ASN][1000 genomes]
rs34416126	0.99[ASN][1000 genomes]
rs4109977	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs4618611	0.84[JPT][hapmap]
rs4725691	0.93[CHB][hapmap]
rs4725692	1.00[CHB][hapmap]
rs4725694	0.84[JPT][hapmap]
rs4726785	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs57803192	0.91[ASN][1000 genomes]
rs6464758	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs6464759	0.87[JPT][hapmap]
rs6948846	0.91[MEX][hapmap]
rs6951145	0.88[JPT][hapmap]
rs6963627	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap]
rs6978796	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs766503	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7780801	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs7784672	0.84[JPT][hapmap]
rs7784977	0.84[JPT][hapmap]
rs7803472	0.84[JPT][hapmap]
rs802191	1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs802196	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs802200	0.96[CEU][hapmap];0.90[JPT][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs802203	1.00[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs986264	0.91[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1639481	OR6V1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:146089000-146109400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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