Variant report

Variant	rs12500533
Chromosome Location	chr4:99105986-99105987
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	chr4:99105475..99108210-chr4:99112091..99113844,2	MCF-7	breast:

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10005811	0.81[ASN][1000 genomes]
rs10006820	0.81[ASN][1000 genomes]
rs10018670	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10028275	0.81[ASN][1000 genomes]
rs10028373	0.81[ASN][1000 genomes]
rs10029454	0.81[ASN][1000 genomes]
rs10470895	0.81[ASN][1000 genomes]
rs10470952	0.81[ASN][1000 genomes]
rs12498437	0.81[ASN][1000 genomes]
rs12498745	0.81[ASN][1000 genomes]
rs12499530	0.81[ASN][1000 genomes]
rs12501974	0.81[ASN][1000 genomes]
rs12503117	0.81[ASN][1000 genomes]
rs12508445	0.81[ASN][1000 genomes]
rs12510670	0.89[ASN][1000 genomes]
rs12512117	0.81[ASN][1000 genomes]
rs1453344	0.81[ASN][1000 genomes]
rs1453345	0.81[ASN][1000 genomes]
rs1580065	0.81[ASN][1000 genomes]
rs1580066	0.81[ASN][1000 genomes]
rs17027330	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17027331	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17027339	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17027386	0.81[ASN][1000 genomes]
rs17027412	0.81[ASN][1000 genomes]
rs17027449	0.81[ASN][1000 genomes]
rs17027452	0.81[ASN][1000 genomes]
rs2042653	0.81[ASN][1000 genomes]
rs2042654	0.81[ASN][1000 genomes]
rs2081490	0.81[ASN][1000 genomes]
rs2194896	0.81[ASN][1000 genomes]
rs28409461	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28470922	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs28472839	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28484692	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28536684	0.81[ASN][1000 genomes]
rs28540371	0.89[ASN][1000 genomes]
rs28603037	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28612663	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28613236	0.89[ASN][1000 genomes]
rs28644420	0.81[ASN][1000 genomes]
rs28703816	0.81[ASN][1000 genomes]
rs28715883	0.81[ASN][1000 genomes]
rs3974886	0.81[ASN][1000 genomes]
rs4557264	0.81[ASN][1000 genomes]
rs4699333	0.82[AMR][1000 genomes]
rs4699334	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4699335	0.81[ASN][1000 genomes]
rs4699336	0.81[ASN][1000 genomes]
rs4699338	0.81[ASN][1000 genomes]
rs4699614	0.96[ASN][1000 genomes]
rs4699616	0.89[ASN][1000 genomes]
rs4699617	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6811422	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6814081	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6814168	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6820913	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6821608	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72898360	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72898390	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72898391	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7663435	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7670303	0.91[AMR][1000 genomes]
rs7683964	0.81[ASN][1000 genomes]
rs7692963	0.81[ASN][1000 genomes]
rs7695463	0.81[ASN][1000 genomes]
rs890207	0.81[ASN][1000 genomes]
rs919027	0.81[ASN][1000 genomes]
rs919028	0.81[ASN][1000 genomes]
rs9990962	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529623	chr4:98501338-99460166	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv1000956	chr4:98732458-99178588	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1001570	chr4:98976239-99239838	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv879650	chr4:99057457-99172232	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv998270	chr4:99063275-99120404	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv461595	chr4:99065480-99172175	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv594939	chr4:99065480-99172175	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv470061	chr4:99078105-99160699	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1004616	chr4:99085875-99308901	Genic enhancers Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	esv2763801	chr4:99094892-99413853	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	esv2754250	chr4:99094922-99527122	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
12	nsv879651	chr4:99105055-99441349	Weak transcription Genic enhancers Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99101800-99108800	Weak transcription	Primary B cells from cord blood	blood

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