Variant report

Variant	rs4886646
Chromosome Location	chr15:74109219-74109220
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:74080984..74083253-chr15:74106432..74109380,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1031407	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11072443	0.90[ASN][1000 genomes]
rs11072447	1.00[JPT][hapmap]
rs11632129	0.81[ASN][1000 genomes]
rs11636136	0.86[JPT][hapmap]
rs12148568	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12909231	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12910560	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12914845	0.88[ASN][1000 genomes]
rs1377060	0.90[ASN][1000 genomes]
rs1478558	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17188111	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17188988	0.96[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs1823718	0.81[ASN][1000 genomes]
rs1901571	0.81[ASN][1000 genomes]
rs2045930	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2045931	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];0.81[TSI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2198295	0.90[ASN][1000 genomes]
rs2415231	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34222037	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35814490	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4886412	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4886418	0.90[ASN][1000 genomes]
rs4886419	0.90[ASN][1000 genomes]
rs4886643	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4886644	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4886645	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4886694	0.81[ASN][1000 genomes]
rs4886698	0.81[ASN][1000 genomes]
rs4886782	1.00[YRI][hapmap]
rs62007073	0.82[AMR][1000 genomes]
rs6495081	0.90[ASN][1000 genomes]
rs71399764	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7181093	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs746653	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs746654	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs8023709	0.90[ASN][1000 genomes]
rs896600	0.81[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs4886646	MPI	cis	parietal	SCAN
rs4886646	PAQR5	cis	cerebellum	SCAN
rs4886646	HEXA	cis	parietal	SCAN
rs4886646	C15orf59	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74097800-74110200	Weak transcription	Brain Germinal Matrix	brain
2	chr15:74105600-74109800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:74106200-74110200	Weak transcription	Fetal Brain Female	brain
4	chr15:74107000-74110400	Weak transcription	Fetal Brain Male	brain

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