Variant report

Variant	rs2544425
Chromosome Location	chr4:106801279-106801280
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	chr4:106800923..106802785-chr4:106816136..106818564,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138785	Chromatin interaction
ENSG00000168743	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10516523	0.82[CHB][hapmap]
rs11722731	0.82[CHB][hapmap];0.84[TSI][hapmap]
rs11933386	0.98[ASN][1000 genomes]
rs11933393	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11933466	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11934139	0.82[CHB][hapmap]
rs11941690	0.82[CHB][hapmap]
rs12639750	0.82[CHB][hapmap]
rs13148869	0.82[CHB][hapmap]
rs17262764	0.82[CHB][hapmap]
rs2080789	0.82[CHB][hapmap]
rs2544395	0.82[CHB][hapmap]
rs2544398	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2544400	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544404	0.95[ASN][1000 genomes]
rs2544405	0.83[ASN][1000 genomes]
rs2544406	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544408	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544409	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2544410	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544412	0.82[CHB][hapmap]
rs2544421	0.98[ASN][1000 genomes]
rs2544423	1.00[ASN][1000 genomes]
rs2553432	1.00[ASN][1000 genomes]
rs2553434	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2553436	0.88[ASN][1000 genomes]
rs2553437	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2553438	0.95[ASN][1000 genomes]
rs2553440	0.84[ASN][1000 genomes]
rs2553441	0.84[ASN][1000 genomes]
rs2553453	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2553454	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2553458	0.82[CHB][hapmap]
rs2553468	0.82[CHB][hapmap]
rs2553472	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4699196	0.82[CHB][hapmap]
rs6533218	0.89[CHB][hapmap]
rs6533221	0.87[ASN][1000 genomes]
rs6820200	0.82[CHB][hapmap]
rs7667055	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7684839	0.82[CHB][hapmap]
rs7685231	0.82[CHB][hapmap]
rs7690167	0.92[EUR][1000 genomes];0.96[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	nsv830028	chr4:106769299-106801806	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1014993	chr4:106796019-106980727	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106792200-106815800	Weak transcription	Aorta	Aorta

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