Variant report

Variant	rs73401235
Chromosome Location	chr15:39807928-39807929
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:39807906-39807982	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000259390	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10520134	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1551947	1.00[AMR][1000 genomes]
rs16969254	1.00[AMR][1000 genomes]
rs1876850	0.83[AMR][1000 genomes]
rs1876851	0.83[AMR][1000 genomes]
rs1961097	0.83[AMR][1000 genomes]
rs28390974	0.83[AMR][1000 genomes]
rs28605448	0.83[AMR][1000 genomes]
rs56955538	1.00[EUR][1000 genomes]
rs58789628	0.83[AMR][1000 genomes]
rs59284692	0.83[AMR][1000 genomes]
rs61588341	1.00[EUR][1000 genomes]
rs6492901	0.83[AMR][1000 genomes]
rs6492902	1.00[AMR][1000 genomes]
rs6492903	0.83[AMR][1000 genomes]
rs6492904	0.83[AMR][1000 genomes]
rs7167136	1.00[AMR][1000 genomes]
rs7167206	0.83[AMR][1000 genomes]
rs7168679	0.83[AMR][1000 genomes]
rs7168836	0.83[AMR][1000 genomes]
rs7174585	1.00[AMR][1000 genomes]
rs7183198	0.83[AMR][1000 genomes]
rs7183531	1.00[EUR][1000 genomes]
rs73385184	0.83[AMR][1000 genomes]
rs73385188	0.83[AMR][1000 genomes]
rs73387008	0.83[AMR][1000 genomes]
rs73387042	0.83[AMR][1000 genomes]
rs73387053	0.83[AMR][1000 genomes]
rs73387054	0.83[AMR][1000 genomes]
rs73401232	1.00[EUR][1000 genomes]
rs73401240	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8024886	1.00[AMR][1000 genomes]
rs8027586	1.00[AMR][1000 genomes]
rs8030678	1.00[EUR][1000 genomes]
rs8030858	1.00[AMR][1000 genomes]
rs8033130	1.00[EUR][1000 genomes]
rs8039379	0.83[AMR][1000 genomes]
rs937955	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049682	chr15:39657279-40027403	Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv542361	chr15:39657279-40027403	Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3373125	chr15:39691567-40061262	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv904094	chr15:39738006-39976057	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39804200-39811000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr15:39807200-39808200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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