Variant report

Variant	rs1462801
Chromosome Location	chr3:110586856-110586857
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:110584917..110587660-chr3:110588068..110591484,4	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10049325	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10511290	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1075303	0.85[EUR][1000 genomes]
rs11927478	0.83[EUR][1000 genomes]
rs13080214	0.94[ASN][1000 genomes]
rs13093547	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1350980	0.88[ASN][1000 genomes]
rs1381828	0.83[EUR][1000 genomes]
rs1381837	0.82[JPT][hapmap]
rs1462325	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1462789	0.85[EUR][1000 genomes]
rs1462790	0.85[EUR][1000 genomes]
rs1462793	0.85[ASN][1000 genomes]
rs1462795	0.85[EUR][1000 genomes]
rs1462807	0.86[ASN][1000 genomes]
rs1564056	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1580288	0.85[EUR][1000 genomes]
rs1585594	0.84[ASN][1000 genomes]
rs1585595	0.83[EUR][1000 genomes]
rs1599663	0.84[ASN][1000 genomes]
rs1599664	0.84[ASN][1000 genomes]
rs16857483	0.83[EUR][1000 genomes]
rs1824666	0.84[ASN][1000 genomes]
rs1903755	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1903759	0.94[ASN][1000 genomes]
rs1993802	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1993803	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2002969	0.83[EUR][1000 genomes]
rs2100875	0.84[ASN][1000 genomes]
rs2399367	0.88[ASN][1000 genomes]
rs2399368	0.88[ASN][1000 genomes]
rs2399370	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2399371	0.89[ASN][1000 genomes]
rs2399378	0.85[EUR][1000 genomes]
rs35665971	0.83[EUR][1000 genomes]
rs4102676	0.85[EUR][1000 genomes]
rs4234401	0.88[ASN][1000 genomes]
rs4682028	0.85[ASN][1000 genomes]
rs4682212	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682215	0.88[ASN][1000 genomes]
rs5000277	0.85[EUR][1000 genomes]
rs6437940	0.86[EUR][1000 genomes]
rs66513024	0.83[EUR][1000 genomes]
rs67056469	0.83[EUR][1000 genomes]
rs67832786	0.84[ASN][1000 genomes]
rs6787921	0.88[ASN][1000 genomes]
rs6805399	0.90[ASN][1000 genomes]
rs6808847	0.93[ASN][1000 genomes]
rs71618767	0.95[ASN][1000 genomes]
rs723023	0.85[EUR][1000 genomes]
rs723025	0.83[EUR][1000 genomes]
rs7622983	0.83[EUR][1000 genomes]
rs7623003	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623064	0.83[EUR][1000 genomes]
rs7623103	0.83[EUR][1000 genomes]
rs7637068	0.82[EUR][1000 genomes]
rs7644948	0.83[EUR][1000 genomes]
rs9817950	0.85[EUR][1000 genomes]
rs9826064	0.85[EUR][1000 genomes]
rs9839299	0.85[ASN][1000 genomes]
rs9839674	0.85[EUR][1000 genomes]
rs9874206	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9876543	0.94[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	nsv1010230	chr3:110204439-110588814	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv536688	chr3:110204439-110588814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1014199	chr3:110293896-110754155	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv980069	chr3:110584636-110595867	Enhancers ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110556400-110587200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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