Variant report

Variant	rs7875225
Chromosome Location	chr9:95551720-95551721
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:95548519..95551423-chr9:95551697..95555504,3	K562	blood:
2	chr9:95548536..95551423-chr9:95551697..95554622,2	K562	blood:
3	chr9:95488503..95490523-chr9:95550611..95553154,2	MCF-7	breast:
4	chr9:95525165..95529310-chr9:95549740..95553522,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185963	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10117377	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121218	0.90[EUR][1000 genomes]
rs1015791	0.94[EUR][1000 genomes]
rs10739929	0.92[EUR][1000 genomes]
rs10761167	0.91[EUR][1000 genomes]
rs10761168	0.91[EUR][1000 genomes]
rs10761169	0.90[EUR][1000 genomes]
rs10761170	0.91[EUR][1000 genomes]
rs10821009	0.95[JPT][hapmap]
rs10821010	0.95[JPT][hapmap]
rs10821012	0.95[JPT][hapmap]
rs10821013	0.90[EUR][1000 genomes]
rs10992413	0.95[JPT][hapmap]
rs10992415	0.81[EUR][1000 genomes]
rs10992430	0.95[JPT][hapmap]
rs10992431	0.95[JPT][hapmap]
rs10992432	0.95[JPT][hapmap]
rs10992434	0.95[JPT][hapmap]
rs10992436	0.95[JPT][hapmap]
rs10992439	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs10992442	0.95[JPT][hapmap]
rs10992443	0.95[JPT][hapmap]
rs10992444	0.95[JPT][hapmap]
rs10992445	0.95[JPT][hapmap]
rs10992448	0.83[JPT][hapmap]
rs10992451	0.95[JPT][hapmap]
rs10992453	0.82[JPT][hapmap]
rs10992460	0.83[JPT][hapmap]
rs10992461	0.83[JPT][hapmap]
rs10992469	0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10992472	0.86[ASN][1000 genomes]
rs1111047	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs1125063	0.95[JPT][hapmap]
rs1125064	0.95[JPT][hapmap]
rs12236393	0.95[JPT][hapmap]
rs12236516	0.95[JPT][hapmap]
rs12236754	0.82[JPT][hapmap]
rs12238691	0.83[JPT][hapmap]
rs12685080	0.86[JPT][hapmap]
rs12685257	0.95[JPT][hapmap]
rs12685780	0.95[JPT][hapmap]
rs12685791	0.95[JPT][hapmap]
rs1555574	0.98[ASN][1000 genomes]
rs1810696	0.94[CHB][hapmap];0.91[CHD][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs2018717	0.84[GIH][hapmap];0.85[TSI][hapmap]
rs2131918	0.81[CEU][hapmap];0.84[TSI][hapmap]
rs2146719	0.86[ASN][1000 genomes]
rs2181521	0.86[ASN][1000 genomes]
rs2181584	0.83[JPT][hapmap]
rs2181586	0.95[JPT][hapmap]
rs2296080	0.95[JPT][hapmap]
rs3203916	0.95[JPT][hapmap]
rs3739605	0.83[JPT][hapmap]
rs4266708	0.93[EUR][1000 genomes]
rs556	0.95[JPT][hapmap]
rs6479427	0.85[CEU][hapmap];0.83[EUR][1000 genomes]
rs6479429	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs7021624	0.92[EUR][1000 genomes]
rs7031163	0.83[JPT][hapmap]
rs7043114	0.85[CEU][hapmap];0.91[TSI][hapmap]
rs753802	0.95[JPT][hapmap]
rs753803	0.95[JPT][hapmap]
rs7862106	0.95[JPT][hapmap]
rs7862310	0.94[EUR][1000 genomes]
rs7863741	0.84[ASN][1000 genomes]
rs7864757	0.80[EUR][1000 genomes]
rs7868651	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7871537	0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs8181065	0.95[JPT][hapmap]
rs912260	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs912262	0.96[CEU][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap];0.91[EUR][1000 genomes]
rs976320	0.94[JPT][hapmap]
rs9886781	0.85[CEU][hapmap];0.91[TSI][hapmap]
rs9969804	0.81[CEU][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430081	chr9:95502571-95568110	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv982595	chr9:95551536-95561640	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7875225	ANKRD19	cis	parietal	SCAN
rs7875225	ZNF484	cis	parietal	SCAN
rs7875225	IPPK	cis	cerebellum	SCAN
rs7875225	CENPP	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95541400-95558600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:95546000-95553000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:95546000-95553000	Weak transcription	NHEK	skin

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