Variant report

Variant	rs156736
Chromosome Location	chr6:28004059-28004060
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:27999731..28002112-chr6:28002900..28005116,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000217315	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 8 )

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

rs_ID	r²[population]
rs149897	0.85[AFR][1000 genomes]
rs149899	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs149941	0.86[AFR][1000 genomes]
rs149942	0.85[AFR][1000 genomes]
rs149944	0.85[AFR][1000 genomes]
rs149945	0.86[AFR][1000 genomes]
rs149946	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149947	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149948	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs149961	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs149964	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs149968	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149969	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs149970	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs149972	0.81[AFR][1000 genomes]
rs156734	0.84[AFR][1000 genomes]
rs156744	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs172166	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs175954	0.80[EUR][1000 genomes]
rs203890	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34171748	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs464312	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs469227	0.85[AMR][1000 genomes];0.87[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	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
3	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
4	nsv883513	chr6:27982152-28033087	Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	esv1817841	chr6:27984907-28007435	Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv981052	chr6:27987196-28024382	Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs156736	AL022393.7	cis	Muscle Skeletal	GTEx
rs156736	BTN3A2///BTN3A3	Cis_chr	lymphoblastoid	RTeQTL
rs156736	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs156736	OR2B7P	cis	Thyroid	GTEx
rs156736	OR2B8P	cis	Thyroid	GTEx
rs156736	AL022393.7	cis	Nerve Tibial	GTEx
rs156736	RP1-265C24.5	cis	Heart Left Ventricle	GTEx
rs156736	RP1-265C24.5	cis	Muscle Skeletal	GTEx

Chromatin state (count:0 , 50 per page) page:

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