Variant report

Variant	rs4476009
Chromosome Location	chr12:10714379-10714380
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:10713530..10716257-chr12:10762530..10764410,2	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10734838	0.83[ASN][1000 genomes]
rs10743910	0.83[ASN][1000 genomes]
rs10772298	0.81[AFR][1000 genomes]
rs10772312	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10772315	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10772316	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10772317	0.83[ASN][1000 genomes]
rs10772319	0.83[ASN][1000 genomes]
rs10772321	0.83[ASN][1000 genomes]
rs10772323	0.83[ASN][1000 genomes]
rs10772324	0.83[ASN][1000 genomes]
rs10772325	0.83[ASN][1000 genomes]
rs10772326	0.83[ASN][1000 genomes]
rs10772327	0.83[ASN][1000 genomes]
rs10772329	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10845161	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10845163	0.83[ASN][1000 genomes]
rs10845164	0.84[ASN][1000 genomes]
rs10845165	0.85[ASN][1000 genomes]
rs10845166	0.83[ASN][1000 genomes]
rs10845172	0.83[ASN][1000 genomes]
rs10845174	0.82[ASN][1000 genomes]
rs10845175	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11053857	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11053859	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11053865	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11053869	0.83[ASN][1000 genomes]
rs11053870	0.83[ASN][1000 genomes]
rs11053871	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11611202	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12423957	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1915322	0.83[ASN][1000 genomes]
rs1915323	0.83[ASN][1000 genomes]
rs2002156	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2002157	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2125092	0.83[ASN][1000 genomes]
rs2125094	0.84[ASN][1000 genomes]
rs2125095	0.83[ASN][1000 genomes]
rs2168750	0.83[ASN][1000 genomes]
rs2417746	0.84[ASN][1000 genomes]
rs2417747	0.85[ASN][1000 genomes]
rs2417748	0.84[ASN][1000 genomes]
rs28403396	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28701155	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3816567	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3867478	0.83[ASN][1000 genomes]
rs3983544	0.83[ASN][1000 genomes]
rs3983545	0.83[ASN][1000 genomes]
rs3983546	0.83[ASN][1000 genomes]
rs3983547	0.82[ASN][1000 genomes]
rs4076336	0.81[ASN][1000 genomes]
rs4237928	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4237929	0.81[ASN][1000 genomes]
rs4763528	0.83[ASN][1000 genomes]
rs4763531	0.83[ASN][1000 genomes]
rs4763532	0.83[ASN][1000 genomes]
rs4763547	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4763548	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4763550	0.84[ASN][1000 genomes]
rs4763551	0.84[ASN][1000 genomes]
rs4763553	0.84[ASN][1000 genomes]
rs4763555	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4763559	0.83[ASN][1000 genomes]
rs55837119	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58917785	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60367665	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61913124	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6488306	0.82[ASN][1000 genomes]
rs6488307	0.83[ASN][1000 genomes]
rs7134658	0.83[ASN][1000 genomes]
rs7134908	0.83[ASN][1000 genomes]
rs7136964	0.81[ASN][1000 genomes]
rs7137465	0.82[ASN][1000 genomes]
rs7306285	0.83[ASN][1000 genomes]
rs7306724	0.85[ASN][1000 genomes]
rs7311860	0.84[ASN][1000 genomes]
rs7955359	0.81[ASN][1000 genomes]
rs7965052	0.84[ASN][1000 genomes]
rs7978850	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7980411	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898766	chr12:10537269-10722585	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv557459	chr12:10560591-10729821	Genic enhancers Enhancers ZNF genes & repeats Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv898772	chr12:10622047-10722585	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv557479	chr12:10644663-10729821	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv898773	chr12:10660850-10722585	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv898774	chr12:10666025-10722585	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv898775	chr12:10668694-10735786	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv1039120	chr12:10675930-10755446	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv832329	chr12:10677094-10845946	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10710800-10724800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr12:10712200-10714800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr12:10713000-10714400	Enhancers	Primary T cells fromperipheralblood	blood
4	chr12:10713000-10714600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr12:10713200-10715400	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr12:10713400-10714800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr12:10714000-10716000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr12:10714000-10733200	Weak transcription	Primary T cells from cord blood	blood
9	chr12:10714200-10714400	Enhancers	Fetal Thymus	thymus
10	chr12:10714200-10714400	Enhancers	Thymus	Thymus

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