Variant report

Variant	rs12462205
Chromosome Location	chr19:37562172-37562173
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	chr19:37561191..37562720-chr19:37568082..37569609,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000267345	Chromatin interaction
ENSG00000197050	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1234287	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12459805	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12459844	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460043	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12460087	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12460098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460285	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460291	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460498	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12460556	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12460557	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12460577	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12460798	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460800	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460802	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12460821	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12461119	0.82[ASN][1000 genomes]
rs12461358	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12461446	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12461501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12461563	1.00[ASN][1000 genomes]
rs12461933	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12462151	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs12462186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12462276	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12462400	1.00[AFR][1000 genomes]
rs12462623	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12462629	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12463101	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12463103	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12463125	0.88[ASN][1000 genomes]
rs12463214	1.00[AFR][1000 genomes]
rs12463280	1.00[ASN][1000 genomes]
rs12463328	0.95[ASN][1000 genomes]
rs1521096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1521097	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1521098	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1521099	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs16960966	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs16989369	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs17239026	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17304758	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17721244	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs17842485	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2305266	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs3213840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34191527	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs34994400	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35314047	1.00[ASN][1000 genomes]
rs35374722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35692141	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs36023046	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4358055	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs56717658	0.95[ASN][1000 genomes]
rs57057279	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs57505463	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs58017177	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs59044151	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs59397049	0.91[ASN][1000 genomes]
rs60479919	0.91[ASN][1000 genomes]
rs61056688	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs61371510	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73618072	0.95[ASN][1000 genomes]
rs73618081	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73618082	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73618086	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73618088	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73618098	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73620807	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73620810	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73620811	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73620813	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73620816	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73620836	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620839	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620840	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620843	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620852	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620854	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620860	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73620862	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620866	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73620870	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73624813	0.91[ASN][1000 genomes]
rs73625272	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73626558	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73626564	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73626588	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73626597	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73626600	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8113719	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
6	esv3507199	chr19:37284708-37805639	Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	esv3507200	chr19:37284708-37805639	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
8	esv3497360	chr19:37290273-37745365	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	esv3497361	chr19:37290273-37745365	Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
10	nsv458568	chr19:37325826-37747108	Strong transcription ZNF genes & repeats Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
11	nsv579461	chr19:37325826-37747108	Strong transcription Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
12	nsv833818	chr19:37427808-37602800	Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
13	nsv911652	chr19:37437106-37774299	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
14	nsv911654	chr19:37487632-37758082	Strong transcription Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37551600-37568200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr19:37560600-37568000	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr19:37561000-37562400	ZNF genes & repeats	Liver	Liver

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