Variant report

Variant	rs59704928
Chromosome Location	chr5:107711312-107711313
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	chr5:107704058..107705992-chr5:107711279..107713882,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs11240963	1.00[EUR][1000 genomes]
rs2416527	0.83[AMR][1000 genomes]
rs28513512	0.83[AMR][1000 genomes]
rs55825519	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56024626	0.83[AMR][1000 genomes]
rs56355836	1.00[EUR][1000 genomes]
rs56929525	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57269490	0.83[AMR][1000 genomes]
rs57354704	0.83[AMR][1000 genomes]
rs57911118	0.83[AMR][1000 genomes]
rs58040806	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58537065	0.83[AMR][1000 genomes]
rs58899755	0.83[AMR][1000 genomes]
rs59260333	0.83[AMR][1000 genomes]
rs59547451	0.81[AFR][1000 genomes]
rs60042566	1.00[EUR][1000 genomes]
rs60212774	0.83[AMR][1000 genomes]
rs60381359	1.00[AMR][1000 genomes]
rs61096927	0.83[AMR][1000 genomes]
rs61201760	0.83[AMR][1000 genomes]
rs61614616	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6594302	1.00[EUR][1000 genomes]
rs6861104	0.83[AMR][1000 genomes]
rs6862778	1.00[EUR][1000 genomes]
rs6866453	0.82[AFR][1000 genomes]
rs6867893	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6879038	0.83[AMR][1000 genomes]
rs6879616	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6883115	1.00[AMR][1000 genomes]
rs73778679	1.00[AMR][1000 genomes]
rs73778680	1.00[AMR][1000 genomes]
rs73778682	0.85[AMR][1000 genomes]
rs73778683	0.83[AMR][1000 genomes]
rs73778684	0.85[AMR][1000 genomes]
rs73778685	0.83[AMR][1000 genomes]
rs73778688	0.83[AMR][1000 genomes]
rs73778696	0.83[AMR][1000 genomes]
rs73778698	1.00[AMR][1000 genomes]
rs73781305	1.00[AMR][1000 genomes]
rs73781306	0.83[AMR][1000 genomes]
rs73781307	1.00[AMR][1000 genomes]
rs73781308	0.83[AMR][1000 genomes]
rs73781309	0.83[AMR][1000 genomes]
rs73781312	1.00[AMR][1000 genomes]
rs73781321	0.83[AMR][1000 genomes]
rs73781322	0.83[AMR][1000 genomes]
rs73781323	0.83[AMR][1000 genomes]
rs73781324	0.83[AMR][1000 genomes]
rs73781326	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73781327	0.83[AMR][1000 genomes]
rs73781330	0.83[AMR][1000 genomes]
rs73781331	0.83[AMR][1000 genomes]
rs73781332	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73781333	1.00[EUR][1000 genomes]
rs73781335	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73781336	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73781338	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73781339	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73781340	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73781341	1.00[EUR][1000 genomes]
rs73781344	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73781353	1.00[EUR][1000 genomes]
rs73781354	1.00[EUR][1000 genomes]
rs73781358	1.00[EUR][1000 genomes]
rs73781359	1.00[EUR][1000 genomes]
rs7706235	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7709699	0.83[AMR][1000 genomes]
rs7713871	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7722719	0.83[AMR][1000 genomes]
rs7722938	0.83[AMR][1000 genomes]
rs7725340	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7726195	1.00[AMR][1000 genomes]
rs7728430	1.00[AMR][1000 genomes]
rs7737226	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7737425	0.83[AMR][1000 genomes]
rs962681	0.83[AMR][1000 genomes]
rs9942358	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv882686	chr5:107564746-107769095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv882688	chr5:107595383-107715746	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
5	esv2755544	chr5:107614101-107748101	Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107697200-107715200	Weak transcription	HSMM	muscle
2	chr5:107698200-107715600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:107699000-107712800	Weak transcription	Right Ventricle	heart
4	chr5:107706400-107714200	Weak transcription	Left Ventricle	heart
5	chr5:107708600-107716200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr5:107709200-107712200	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr5:107709600-107713800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr5:107709600-107714200	Weak transcription	Gastric	stomach
9	chr5:107709600-107715600	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr5:107709600-107715600	Weak transcription	Thymus	Thymus
11	chr5:107709600-107716000	Weak transcription	Ovary	ovary
12	chr5:107709800-107715200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr5:107710000-107715600	Weak transcription	HSMMtube	muscle
14	chr5:107710200-107714400	Weak transcription	Primary T cells from cord blood	blood
15	chr5:107711000-107715600	Weak transcription	Fetal Thymus	thymus

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