Variant report

Variant	rs28993079
Chromosome Location	chr6:24275815-24275816
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	chr6:24273970..24276179-chr6:24277278..24279820,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12189861	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190103	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12190202	0.91[EUR][1000 genomes]
rs12197537	0.91[EUR][1000 genomes]
rs12199068	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12201442	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205083	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12215082	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1541190	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1591997	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2792682	0.88[ASN][1000 genomes]
rs28993075	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28993077	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28993078	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2994542	0.92[ASN][1000 genomes]
rs3789226	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846827	0.91[ASN][1000 genomes]
rs3846828	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4612153	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6907864	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6923278	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6923473	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72830866	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73726645	0.83[AFR][1000 genomes]
rs807699	0.92[ASN][1000 genomes]
rs807709	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs807724	0.88[ASN][1000 genomes]
rs807726	0.85[ASN][1000 genomes]
rs9295616	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9460976	0.90[EUR][1000 genomes]
rs9460977	0.90[EUR][1000 genomes]
rs9460981	0.86[ASN][1000 genomes]
rs9460983	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9460984	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467076	0.88[EUR][1000 genomes]
rs9467078	0.90[EUR][1000 genomes]
rs9467079	0.90[EUR][1000 genomes]
rs9467081	0.90[EUR][1000 genomes]
rs9467090	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv427746	chr6:24221299-24305709	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24263000-24283000	Weak transcription	Fetal Intestine Large	intestine
2	chr6:24270400-24283800	Weak transcription	Pancreas	Pancrea
3	chr6:24271200-24283400	Weak transcription	Fetal Intestine Small	intestine
4	chr6:24274200-24283800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:24274600-24279600	Weak transcription	Fetal Kidney	kidney
6	chr6:24274800-24277000	Weak transcription	HepG2	liver

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