Variant report

Variant	rs13218875
Chromosome Location	chr6:27884012-27884013
allele	C/T
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	STAT3	chr6:27883827-27884114	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:27882241..27884858-chr6:27901500..27903298,2	K562	blood:
2	chr6:27877630..27879504-chr6:27883396..27885333,2	MCF-7	breast:

Variant related genes	Relation type
OR2B2	TF binding region

Extended variants
information (count: 83 )
Associated
traits (count: 6 )

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

rs_ID	r²[population]
rs13193295	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13193480	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs13193542	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs13194781	1.00[CEU][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs13195728	0.88[EUR][1000 genomes]
rs13199649	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13199772	1.00[CEU][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs13199906	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs13200214	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs13202291	1.00[AFR][1000 genomes]
rs13202295	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs13212318	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs13212651	1.00[CEU][hapmap];0.87[TSI][hapmap];0.91[EUR][1000 genomes]
rs13216117	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs149943	0.83[CEU][hapmap]
rs149990	0.83[CEU][hapmap]
rs175597	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs17693963	1.00[CEU][hapmap]
rs17695758	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs17750747	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs17751184	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs17763089	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs200481	0.91[CEU][hapmap]
rs200482	0.91[CEU][hapmap]
rs200483	0.91[CEU][hapmap]
rs200484	0.91[CEU][hapmap]
rs200485	0.91[CEU][hapmap]
rs200490	0.91[CEU][hapmap]
rs200493	0.80[EUR][1000 genomes]
rs200501	0.91[CEU][hapmap]
rs200948	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs200949	0.91[CEU][hapmap]
rs200950	0.81[EUR][1000 genomes]
rs200952	0.81[EUR][1000 genomes]
rs200953	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs200954	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs200977	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs200981	0.89[CEU][hapmap];0.80[EUR][1000 genomes]
rs200983	0.80[EUR][1000 genomes]
rs200989	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs200990	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs200995	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs200996	0.80[EUR][1000 genomes]
rs201002	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs202906	0.80[CEU][hapmap]
rs2747054	0.91[CEU][hapmap]
rs28360499	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34194357	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs34295134	0.80[EUR][1000 genomes]
rs34409918	1.00[AFR][1000 genomes]
rs34432857	1.00[AFR][1000 genomes]
rs34706883	1.00[CEU][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs34718920	0.88[EUR][1000 genomes]
rs34788973	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35037868	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs35202262	1.00[AFR][1000 genomes]
rs35339855	1.00[AFR][1000 genomes]
rs35501037	0.81[EUR][1000 genomes]
rs35819751	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs36101351	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs36116761	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs370155	0.91[CEU][hapmap]
rs401763	0.91[CEU][hapmap]
rs425335	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs45509595	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs483143	0.80[EUR][1000 genomes]
rs493161	0.81[EUR][1000 genomes]
rs557042	0.81[EUR][1000 genomes]
rs61742093	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs66868086	0.91[EUR][1000 genomes]
rs67040724	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs67101035	0.88[EUR][1000 genomes]
rs71537572	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71559050	0.88[EUR][1000 genomes]
rs71559054	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72847313	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]

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	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
7	nsv970030	chr6:27880682-27909942	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs13218875	ZFP57	Cis_chr	lymphoblastoid	RTeQTL
rs13218875	LOC100270746	cis	lymphoblastoid	seeQTL
rs13218875	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs13218875	AL022393.7	cis	Muscle Skeletal	GTEx
rs13218875	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL
rs13218875	BTN3A2	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27882200-27886800	Weak transcription	K562	blood

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