Variant report

Variant	rs1011374
Chromosome Location	chr3:159108395-159108396
allele	C/T
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	E2F4	chr3:159108357-159108487	MCF10A-Er-Src	breast:	n/a	n/a
2	GATA3	chr3:159108022-159108401	SH-SY5Y	brain:	n/a	chr3:159108247-159108254 chr3:159108194-159108204 chr3:159108195-159108204 chr3:159108195-159108204 chr3:159108247-159108254 chr3:159108247-159108254

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159025201..159027938-chr3:159107782..159110251,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000244249	TF binding region

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11921372	0.92[CEU][hapmap]
rs12487415	0.86[AMR][1000 genomes]
rs12487721	1.00[CEU][hapmap];0.88[YRI][hapmap]
rs12491939	1.00[CEU][hapmap]
rs12492096	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs12495863	1.00[CEU][hapmap]
rs1375409	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs1449000	0.80[AMR][1000 genomes]
rs1449006	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1449013	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs16830350	1.00[CEU][hapmap];0.88[YRI][hapmap]
rs1967363	0.92[CEU][hapmap]
rs2365835	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2886482	1.00[CEU][hapmap];0.86[AMR][1000 genomes]
rs4679856	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4680509	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs6441260	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6441261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73166274	0.84[AMR][1000 genomes]
rs73166276	0.86[AMR][1000 genomes]
rs73166277	0.86[AMR][1000 genomes]
rs7621541	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7629746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap]
rs7632141	0.87[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs7643870	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs878382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs895876	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs895877	0.92[CEU][hapmap]
rs9834663	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9880297	0.81[CEU][hapmap]

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	nsv530059	chr3:158332590-159147549	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv470971	chr3:158590928-159158217	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1004990	chr3:159090974-159174954	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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