Variant report

Variant	rs2108924
Chromosome Location	chr6:28426378-28426379
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	SIN3AK20	chr6:28425993-28426799	MCF-7	breast:	n/a	n/a
2	ZNF217	chr6:28426105-28426756	MCF-7	breast:	n/a	n/a
3	NR2F2	chr6:28426297-28426815	MCF-7	breast:	n/a	n/a
4	MAX	chr6:28426332-28426667	MCF-7	breast:	n/a	n/a
5	NR2F2	chr6:28426298-28426840	MCF-7	breast:	n/a	n/a
6	TCF7L2	chr6:28426204-28426786	MCF-7	breast:	n/a	chr6:28426509-28426516
7	GATA3	chr6:28425961-28426937	MCF-7	breast:	n/a	n/a
8	GATA3	chr6:28425771-28427054	MCF-7	breast:	n/a	chr6:28426996-28427003 chr6:28426996-28427003 chr6:28426996-28427003
9	GATA3	chr6:28426068-28426654	MCF-7	breast:	n/a	n/a
10	GATA3	chr6:28426002-28426570	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:28366682..28368772-chr6:28423873..28426480,2	K562	blood:

Variant related genes	Relation type
OR2E1P	TF binding region
ENSG00000158691	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10080420	0.80[ASN][1000 genomes]
rs10807036	0.81[ASN][1000 genomes]
rs1150722	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs1150723	1.00[JPT][hapmap]
rs1150725	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs11966042	1.00[CEU][hapmap]
rs11966237	1.00[CEU][hapmap]
rs1225600	1.00[JPT][hapmap]
rs12332986	0.80[ASN][1000 genomes]
rs1778510	1.00[JPT][hapmap]
rs213227	1.00[CEU][hapmap]
rs2159274	1.00[CEU][hapmap]
rs2191036	0.80[ASN][1000 genomes]
rs2531801	1.00[CEU][hapmap]
rs2531812	1.00[CEU][hapmap]
rs2531816	1.00[CEU][hapmap]
rs2531828	1.00[CEU][hapmap]
rs2799076	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs2859354	1.00[CEU][hapmap]
rs2859367	1.00[CEU][hapmap]
rs2859375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859376	1.00[CEU][hapmap]
rs3757180	1.00[JPT][hapmap]
rs6456812	0.85[GIH][hapmap];1.00[JPT][hapmap]
rs6456817	1.00[JPT][hapmap]
rs6456820	0.80[ASN][1000 genomes]
rs6899512	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6901001	0.85[GIH][hapmap];1.00[JPT][hapmap]
rs6902583	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs6908459	0.85[GIH][hapmap];1.00[JPT][hapmap]
rs6910120	0.85[GIH][hapmap];1.00[JPT][hapmap]
rs6912921	1.00[JPT][hapmap]
rs6916243	1.00[CEU][hapmap]
rs6918631	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs6922161	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs6922302	1.00[JPT][hapmap]
rs6927023	1.00[GIH][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs6929449	0.85[GIH][hapmap];1.00[JPT][hapmap]
rs6938371	1.00[JPT][hapmap]
rs6941222	0.80[ASN][1000 genomes]
rs719370	1.00[CEU][hapmap]
rs7752448	1.00[JPT][hapmap]
rs7752721	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs7759845	1.00[CEU][hapmap]
rs7759855	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs7767897	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs9295769	0.85[GIH][hapmap];1.00[JPT][hapmap]
rs9295770	1.00[JPT][hapmap]
rs9461450	1.00[JPT][hapmap]
rs9461457	1.00[JPT][hapmap]
rs9468384	0.80[ASN][1000 genomes]

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	nsv462666	chr6:28417222-28574415	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv601210	chr6:28417222-28574415	Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 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	chr6:28426200-28429000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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