Variant report

Variant	rs1404698
Chromosome Location	chr7:108544284-108544285
allele	C/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	FOXA1	chr7:108544131-108544429	T-47D	breast:	n/a	n/a
2	FOXA1	chr7:108544174-108544435	T-47D	breast:	n/a	n/a
3	GATA3	chr7:108544121-108544488	T-47D	breast:	n/a	n/a
4	GATA3	chr7:108544149-108544531	T-47D	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000269185	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10953586	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10953587	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10953588	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1100225	0.92[ASN][1000 genomes]
rs11762097	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11762975	1.00[CHB][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11765006	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11768230	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11768295	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11768328	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11769067	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11770605	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11771056	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11771507	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11772759	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11773556	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11773560	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12667293	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12667868	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12668001	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12668048	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12670362	0.89[EUR][1000 genomes]
rs12672148	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12672328	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1404696	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1404697	0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2189048	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2189050	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28687646	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73422634	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73422640	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73424667	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7457714	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7798473	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs848339	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs848353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs848361	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs848390	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817371	chr7:108199882-108649799	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1031096	chr7:108334543-108596014	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:108542600-108545400	Weak transcription	HUES48 Cell Line	embryonic stem cell

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