Variant report

Variant	rs6795043
Chromosome Location	chr3:23313684-23313685
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	chr3:23313519-23313884	MCF-7	breast:	n/a	n/a
2	CTCF	chr3:23313540-23313690	K562	blood:	n/a	n/a
3	MYC	chr3:23313676-23313702	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000206728	TF binding region

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs17013009	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17013099	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28548892	1.00[AMR][1000 genomes]
rs28641973	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57747253	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58879825	1.00[AMR][1000 genomes]
rs61081559	1.00[AMR][1000 genomes]
rs61500565	1.00[AMR][1000 genomes]
rs61636332	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6768277	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138415	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73138434	1.00[AMR][1000 genomes]
rs73138436	1.00[AMR][1000 genomes]
rs73138449	1.00[AMR][1000 genomes]
rs73138480	1.00[AMR][1000 genomes]
rs73138490	1.00[AMR][1000 genomes]
rs73138492	1.00[AMR][1000 genomes]
rs73149654	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73149686	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73149689	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7634565	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7646028	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7652287	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9310716	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9681506	1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9809364	0.81[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9810378	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9811442	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819566	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs9819788	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9821681	0.80[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9829577	1.00[AMR][1000 genomes]
rs9834737	1.00[AMR][1000 genomes]
rs9842159	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9845340	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs9852053	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs9861614	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9866889	1.00[AMR][1000 genomes]
rs9869171	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs9878638	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9879132	0.91[YRI][hapmap];1.00[AMR][1000 genomes]
rs9879217	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[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	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23295200-23321800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:23298800-23336600	Weak transcription	Thymus	Thymus
3	chr3:23299000-23314200	Weak transcription	Primary T cells from cord blood	blood
4	chr3:23302400-23321000	Weak transcription	Pancreas	Pancrea
5	chr3:23305600-23318400	Weak transcription	Brain Substantia Nigra	brain
6	chr3:23306800-23314200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:23307200-23314400	Weak transcription	HSMMtube	muscle
8	chr3:23307200-23316000	Weak transcription	Primary B cells from cord blood	blood
9	chr3:23312000-23316800	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:23312400-23314800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:23312600-23314000	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:23312800-23313800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:23312800-23314000	ZNF genes & repeats	Lung	lung
14	chr3:23312800-23314200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:23312800-23314200	ZNF genes & repeats	Fetal Stomach	stomach
16	chr3:23312800-23314400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:23313200-23314000	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr3:23313200-23314000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr3:23313200-23314400	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr3:23313400-23313800	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr3:23313400-23314000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr3:23313400-23314000	ZNF genes & repeats	Spleen	Spleen
23	chr3:23313400-23314200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
24	chr3:23313400-23314400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr3:23313400-23314600	ZNF genes & repeats	GM12878-XiMat	blood
26	chr3:23313600-23314000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr3:23313600-23314400	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr3:23313600-23314400	Weak transcription	Primary B cells from peripheral blood	blood

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