Variant report

Variant	rs13299924
Chromosome Location	chr9:100627562-100627563
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100626486..100628892-chr9:100629679..100633114,3	MCF-7	breast:
2	chr9:100626070..100628696-chr9:100630094..100631909,2	K562	blood:

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10046805	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10113884	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10115216	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10117642	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10119760	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10119853	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10120412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10122541	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123699	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10512255	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10739526	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10759975	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10759981	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10818124	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10818133	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10818175	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10818213	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10818241	0.86[EUR][1000 genomes]
rs10984079	0.85[ASN][1000 genomes]
rs10984103	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10984134	0.85[ASN][1000 genomes]
rs10984156	0.85[ASN][1000 genomes]
rs10984195	0.81[ASN][1000 genomes]
rs10984218	0.81[ASN][1000 genomes]
rs10984222	0.81[ASN][1000 genomes]
rs10984230	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10984235	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10984253	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12004762	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12006522	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12341377	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12342417	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12343182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12347191	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12348304	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12348691	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12550872	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13286291	0.84[EUR][1000 genomes]
rs13287360	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13302470	0.82[AMR][1000 genomes]
rs1443434	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1443435	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1443436	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1561957	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1561961	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1867277	0.85[AMR][1000 genomes]
rs1867280	0.85[AMR][1000 genomes]
rs1955143	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1955144	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1955145	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2120262	0.81[ASN][1000 genomes]
rs2120264	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2282190	0.81[ASN][1000 genomes]
rs2401639	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2417575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2417576	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28417086	0.81[ASN][1000 genomes]
rs28697997	0.81[ASN][1000 genomes]
rs28703314	0.83[EUR][1000 genomes]
rs3021525	0.83[ASN][1000 genomes]
rs3021526	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3758248	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3758249	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3758250	0.83[ASN][1000 genomes]
rs3758251	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3808893	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3824495	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4255258	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4460498	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4743139	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4743142	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6478437	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6478445	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6478469	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6478471	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7022148	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7027221	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7031386	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7032086	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7032114	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7034249	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7034336	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7034648	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7036589	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7037175	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7037324	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7038998	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7044121	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7044799	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7048255	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72753537	0.81[ASN][1000 genomes]
rs7851552	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7851660	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7860144	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7866436	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7868534	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894673	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs907577	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs907581	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs925487	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9299258	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9775370	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs993501	0.94[AMR][1000 genomes];0.99[EUR][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	nsv893611	chr9:100561055-100739888	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100626000-100628200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr9:100627400-100627600	Weak transcription	GM12878-XiMat	blood

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