Variant report

Variant	rs4889028
Chromosome Location	chr16:79819787-79819788
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	chr16:79810413..79812648-chr16:79818258..79820940,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11150199	0.81[AFR][1000 genomes]
rs11150200	0.81[AFR][1000 genomes]
rs11150215	0.84[AFR][1000 genomes]
rs11643810	0.81[AFR][1000 genomes]
rs11648556	0.87[AFR][1000 genomes]
rs11862593	0.81[AFR][1000 genomes]
rs12444097	0.81[AFR][1000 genomes]
rs12444100	0.81[AFR][1000 genomes]
rs12446125	0.81[AFR][1000 genomes]
rs12919529	0.87[AFR][1000 genomes]
rs12923698	0.87[AFR][1000 genomes]
rs12925344	0.87[AFR][1000 genomes]
rs12931444	0.81[AFR][1000 genomes]
rs12931584	0.81[AFR][1000 genomes]
rs12934885	0.81[AFR][1000 genomes]
rs3935177	0.81[AFR][1000 genomes]
rs4243184	0.81[AFR][1000 genomes]
rs4494553	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4584830	0.81[AFR][1000 genomes]
rs4611477	0.81[AFR][1000 genomes]
rs4636922	0.81[AFR][1000 genomes]
rs4888047	0.81[AFR][1000 genomes]
rs4889029	0.81[AFR][1000 genomes]
rs4889030	0.81[AFR][1000 genomes]
rs4889031	0.81[AFR][1000 genomes]
rs4889032	0.84[ASW][hapmap]
rs7188113	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv530714	chr16:79661581-79925435	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS 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	16 gene(s)	inside rSNPs	diseases
3	nsv833296	chr16:79692236-79889727	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv833297	chr16:79732501-79920419	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	esv3397515	chr16:79818451-79822849	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4889028	RP11-345M22.1	cis	Skin Sun Exposed Lower leg	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:79814000-79839600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr16:79818400-79823200	Weak transcription	Esophagus	oesophagus

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