Variant report

Variant	rs188015
Chromosome Location	chr6:27877446-27877447
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs1015075	0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13194781	0.81[EUR][1000 genomes]
rs13199649	0.83[EUR][1000 genomes]
rs13199772	0.81[EUR][1000 genomes]
rs13199906	0.81[EUR][1000 genomes]
rs13212651	0.81[EUR][1000 genomes]
rs13216117	0.84[EUR][1000 genomes]
rs149943	0.91[CEU][hapmap];0.93[YRI][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs149949	0.86[EUR][1000 genomes]
rs149990	0.91[CEU][hapmap];0.93[YRI][hapmap]
rs156743	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs175597	0.83[CEU][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs17695758	0.81[EUR][1000 genomes]
rs17763089	0.81[EUR][1000 genomes]
rs183225	0.85[JPT][hapmap]
rs200466	0.84[JPT][hapmap]
rs200469	0.84[JPT][hapmap]
rs200473	0.85[JPT][hapmap]
rs200479	0.84[JPT][hapmap]
rs200481	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs200482	0.83[CEU][hapmap];0.85[JPT][hapmap]
rs200483	0.83[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs200484	0.83[CEU][hapmap];0.84[JPT][hapmap]
rs200485	0.83[CEU][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs200489	0.81[EUR][1000 genomes]
rs200490	0.82[CEU][hapmap];0.84[JPT][hapmap]
rs200501	0.82[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs200948	0.83[CEU][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs200949	0.83[CEU][hapmap];0.85[JPT][hapmap]
rs200950	0.84[EUR][1000 genomes]
rs200952	0.84[EUR][1000 genomes]
rs200953	0.83[CEU][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes]
rs200954	0.83[CEU][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes]
rs200965	0.84[JPT][hapmap]
rs200968	0.84[JPT][hapmap]
rs200973	0.84[JPT][hapmap]
rs200974	0.82[JPT][hapmap]
rs200975	0.85[JPT][hapmap]
rs200977	0.83[CEU][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes]
rs200981	0.80[CEU][hapmap];0.85[JPT][hapmap];0.83[EUR][1000 genomes]
rs200983	0.83[EUR][1000 genomes]
rs200989	0.83[CEU][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs200990	0.83[CEU][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes]
rs200995	0.83[CEU][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs200996	0.83[EUR][1000 genomes]
rs201002	0.83[CEU][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes]
rs202906	0.90[CEU][hapmap];0.80[YRI][hapmap];0.86[EUR][1000 genomes]
rs2747054	0.83[CEU][hapmap];0.84[JPT][hapmap];0.81[EUR][1000 genomes]
rs28360499	0.82[EUR][1000 genomes]
rs34194357	0.81[EUR][1000 genomes]
rs34295134	0.83[EUR][1000 genomes]
rs34788973	0.84[EUR][1000 genomes]
rs35819751	0.81[EUR][1000 genomes]
rs36101351	0.84[EUR][1000 genomes]
rs36116761	0.81[EUR][1000 genomes]
rs370155	0.83[CEU][hapmap];0.84[JPT][hapmap]
rs390764	0.81[EUR][1000 genomes]
rs401754	0.81[EUR][1000 genomes]
rs401763	0.82[CEU][hapmap];0.84[JPT][hapmap]
rs45509595	0.81[EUR][1000 genomes]
rs4713122	0.82[JPT][hapmap]
rs483143	0.83[EUR][1000 genomes]
rs493161	0.84[EUR][1000 genomes]
rs557042	0.84[EUR][1000 genomes]
rs61742093	0.84[EUR][1000 genomes]
rs666846	0.85[JPT][hapmap]
rs66868086	0.81[EUR][1000 genomes]
rs67040724	0.84[EUR][1000 genomes]
rs71559054	0.84[EUR][1000 genomes]
rs904142	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9348779	0.85[JPT][hapmap]
rs9357052	0.82[JPT][hapmap]
rs9368531	0.81[EUR][1000 genomes]
rs9368535	0.85[JPT][hapmap]
rs9368536	0.84[JPT][hapmap]
rs9368537	0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9380026	0.82[JPT][hapmap]
rs9380028	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9380029	0.96[ASN][1000 genomes]
rs9380030	0.86[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432858	chr6:27719375-28011652	Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	387 gene(s)	inside rSNPs	diseases
2	nsv1022173	chr6:27734824-27959408	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
3	nsv883512	chr6:27748631-27969004	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	379 gene(s)	inside rSNPs	diseases
4	nsv601208	chr6:27810626-27969004	Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	237 gene(s)	inside rSNPs	diseases
5	nsv1022651	chr6:27864217-28017997	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
6	nsv830619	chr6:27872302-28062544	Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs188015	AL022393.7	cis	Muscle Skeletal	GTEx
rs188015	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL
rs188015	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs188015	ZFP57	Cis_chr	lymphoblastoid	RTeQTL
rs188015	ZSCAN23	cis	Artery Tibial	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27871600-27883200	Weak transcription	Hela-S3	cervix
2	chr6:27876200-27878800	Weak transcription	K562	blood

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