Variant report

Variant	rs1608073
Chromosome Location	chr3:179820505-179820506
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10513768	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10937018	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13066273	0.99[ASN][1000 genomes]
rs1402965	0.92[ASN][1000 genomes]
rs1522118	0.97[ASN][1000 genomes]
rs1522122	0.96[ASN][1000 genomes]
rs1608071	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1608074	0.92[ASN][1000 genomes]
rs1608075	0.92[ASN][1000 genomes]
rs1915906	0.97[ASN][1000 genomes]
rs1915908	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2140078	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2177130	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34582044	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4376038	0.85[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4501114	0.92[ASN][1000 genomes]
rs4855139	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4855140	0.98[ASN][1000 genomes]
rs6771471	0.92[ASN][1000 genomes]
rs6786266	0.92[ASN][1000 genomes]
rs6803764	0.81[AFR][1000 genomes]
rs6806300	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7618051	0.85[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7635210	0.81[AFR][1000 genomes]
rs7652876	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs950198	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9809186	0.92[ASN][1000 genomes]
rs9833099	0.97[ASN][1000 genomes]
rs9840949	0.92[ASN][1000 genomes]
rs9849935	0.83[ASN][1000 genomes]
rs9850524	0.82[ASN][1000 genomes]
rs9863729	0.99[ASN][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:8 , 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	chr3:179819600-179820600	Enhancers	H9 Cell Line	embryonic stem cell
3	chr3:179819600-179820600	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:179819600-179820600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:179819600-179820800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:179819800-179820600	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr3:179819800-179820800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:179820200-179821000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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