Variant report

Variant	rs62281468
Chromosome Location	chr3:161172482-161172483
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	chr3:161172276..161174982-chr3:161177335..161179468,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10936229	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12497913	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13433795	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13434143	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1450525	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1450533	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1506481	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1506482	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1506483	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1506484	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1546394	0.90[EUR][1000 genomes]
rs1546396	0.90[EUR][1000 genomes]
rs1546397	0.90[EUR][1000 genomes]
rs1546398	0.89[EUR][1000 genomes]
rs1905532	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1960516	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34842468	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3906963	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs41386047	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4263306	0.90[EUR][1000 genomes]
rs4622911	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56375427	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs59955550	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62278277	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62278278	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62279585	0.90[EUR][1000 genomes]
rs62281467	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441379	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6441380	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6441381	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6441382	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6780612	0.92[ASN][1000 genomes]
rs6781610	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6782059	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6803152	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7621624	0.90[EUR][1000 genomes]
rs7621696	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7624603	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7624657	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7624747	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7632851	0.89[EUR][1000 genomes]
rs7635683	0.93[EUR][1000 genomes]
rs7636548	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7646635	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7648970	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs869772	0.89[EUR][1000 genomes]
rs9290079	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9290085	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9811902	0.90[EUR][1000 genomes]
rs9813985	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9813997	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9814485	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9817212	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9817387	0.95[ASN][1000 genomes]
rs9821472	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9821882	0.94[EUR][1000 genomes]
rs9823346	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9831011	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9832020	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9832179	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9832490	0.92[ASN][1000 genomes]
rs9833740	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9833754	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9847488	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9847781	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9847876	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9848624	0.90[EUR][1000 genomes]
rs9854509	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9854709	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9859309	0.93[EUR][1000 genomes]
rs9861927	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9866418	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9869804	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
2	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases
3	nsv877710	chr3:161087857-161245414	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	84 gene(s)	inside rSNPs	diseases
4	nsv829773	chr3:161150422-161315189	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv967084	chr3:161163639-161183247	Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161171800-161173200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:161171800-161173400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr3:161172200-161172800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:161172400-161172800	Enhancers	ES-I3 Cell Line	embryonic stem cell

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