Variant report

Variant	rs11922602
Chromosome Location	chr3:179820837-179820838
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10513767	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11926584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1402964	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1522117	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28815318	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4522765	0.90[EUR][1000 genomes]
rs55817353	0.92[EUR][1000 genomes]
rs57110106	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57938272	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6774709	0.90[EUR][1000 genomes]
rs6796997	0.90[EUR][1000 genomes]
rs6806358	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73061327	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73883501	0.90[EUR][1000 genomes]
rs7618809	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7646858	0.90[EUR][1000 genomes]
rs9809361	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9818637	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9868564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1000756	chr3:179672703-179827373	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1012880	chr3:179772283-179835563	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1012271	chr3:179806875-180234871	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr3:179810600-179843600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:179820200-179821000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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