Variant report

Variant	rs393707
Chromosome Location	chr20:15228787-15228788
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:15222565..15225391-chr20:15228675..15231649,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs17773241	0.88[CEU][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2025142	0.87[CEU][hapmap];1.00[ASN][1000 genomes]
rs2327916	0.88[CEU][hapmap];1.00[ASN][1000 genomes]
rs28696952	0.87[CEU][hapmap];1.00[ASN][1000 genomes]
rs2876396	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs392184	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41420948	0.87[CEU][hapmap];0.85[YRI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4603847	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs463275	0.88[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56090479	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6074854	0.88[CEU][hapmap]
rs6074856	0.88[CEU][hapmap]
rs6079691	0.87[CEU][hapmap];1.00[ASN][1000 genomes]
rs6079697	0.87[CEU][hapmap]
rs6079702	0.87[CEU][hapmap];0.85[YRI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6079704	0.87[CEU][hapmap]
rs6079705	0.87[CEU][hapmap]
rs6079710	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs6079711	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6110538	0.88[CEU][hapmap];1.00[ASN][1000 genomes]
rs6110555	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs7268079	0.87[CEU][hapmap]
rs8126273	0.88[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1065152	chr20:14781684-15305258	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv585540	chr20:14858910-15242365	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1062252	chr20:14964258-15547739	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv544206	chr20:14964258-15547739	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv524481	chr20:15007730-15382919	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv916795	chr20:15041479-15345528	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv1060275	chr20:15084485-15327541	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv1058827	chr20:15159151-15289719	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv1058629	chr20:15211386-15252831	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15227000-15229600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr20:15227200-15229600	Weak transcription	HMEC	breast
3	chr20:15228600-15229000	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr20:15228600-15229000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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